Citrus CAPS Marker Database

National Agriculture and Food Research Organization
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Target: Genome/map
Scaffold/LG

Locus info Cultivar Idenification SNP info Target on C. clementina (v1.0) Target on C. unshiu (v1.0) AGI map info
(Shimada et al. 2014

Takehiko Shimada, Hiroshi Fujii, Tomoko Endo, Takanori Ueda, Aiko Sugiyama, Michiharu Nakano, Masayuki Kita, Terutaka Yoshioka, Tokuro Shimizu, Hirohisa Nesumi, Yoshinori Ikoma, Takaya Moriguchi, Mitsuo Omura (2014) Construction of a citrus framework genetic map anchored by 708 gene-based markers. Tree Genetics & Genomes. 10: 1001-1013.

)
KmMg map info
(Omura et al. 2003

Mitsuo Omura, Takanori Ueda, Masayuki Kita, Akira Komatsu, Yuko Takanokura, Takehiko Shimada, Tomoko Endo, Hirohisa Nesumi, ToshioYoshida (2003) EST mapping of Citrus. Proceedings of the International Society of Citriculture IX Congress 2000. 71-74.

)
JtTr map info
(Omura et al. 2003

Mitsuo Omura, Takanori Ueda, Masayuki Kita, Akira Komatsu, Yuko Takanokura, Takehiko Shimada, Tomoko Endo, Hirohisa Nesumi, ToshioYoshida (2003) EST mapping of Citrus. Proceedings of the International Society of Citriculture IX Congress 2000. 71-74.

)
Km/O41 map info
(Nakano et al. 2003

Mutsuko Nakano, Hirohisa Nesumi, Terutaka Yoshioka, Mitsuo Omura, Toshio Yoshida (2003) Linkage analysis between male sterility of citrus and STS markers. Proceedings of the International Society of Citriculture IX Congress 2000. 179-180

)
Rp/Sa map info
(Ohta et al. 2011

Satoshi Ohta, Tomoko Endo, Takehiko Shimada, Hiroshi Fujii, Tokuro Shimizu, Takeshi Kuniga, Terutaka Yoshioka, Hiroshisa Nesumi, Toshio Yoshida, Mitsuo Omura (2011) PCR primers for marker assisted backcrossing to introduce a CTV resistance gene from Poncirus trifoliata (L.) Raf. into citrus. Journal of the Japanese Society for Horticultural Science. 80: 295-307.

)
Locus
name
Locus
name alias
Rank hybrid cultivar
Citrus
collection
O -
Cultivar identifi-
cation manual

O -
Ninomiya et al. 2015

Taizo Ninomiya, Takehiko Shimada, Tomoko Endo, Keisuke Nonaka, Mitsuo Omura, Hiroshi Fujii (2015) Development of Citrus Cultivar Identification by CAPS Markers and Parentage Analysis. Hort. Res. (Japan) 14: 127-133.


O -
Nonaka et al. 2017

Keisuke Nonaka, Hiroshi Fujii, Masayuki Kita, Takehiko Shimada, Tomoko Endo, Terutaka Yoshioka, Mituso Omura (2017) Identification and parentage analysis of citrus cultivars developed in Japan by CAPS Markers. The Horticulture Journal. 86: 208-221.


O -
Graphical map
O -
Genotype

O -
Fujii et al. 2013

Hiroshi Fujii, Takehiko Shimada, Keisuke Nonaka, Masayuki Kita, Takeshi Kuniga,Tomoko Endo, Yoshinori Ikoma, Mitsuo Omura (2013) High-throughput genotyping in citrus accessions using an SNP genotyping array. Tree Genetics & Genomes. 9: 145-153.



Transcript ID

Scaffold

Start End Transcript ID

Scaffold

Start End Gene function

AGI LG

AGI cM KmMg LG

KmMg cM JtTr LG

JtTr cM Km/O41 LG
Km/O41 cM Rp/Sa LG

Rp/Sa cM
Bf0104 O-----J C_unshiu_01101:mRNA_8.1C_unshiu_01101776948095112-oxophytodienoate reductase 2AGI-0541.306NAT-05
Ov0422 AAvailable marker -----OTP Ciclev10016314mscaffold_21107158711074479J C_unshiu_00184:mRNA_33.1C_unshiu_0018429595329873614-3-3-like protein GF14 muRP-06.128.576
Mf0086 AAvailable marker O---OOSI220,SI315TP Ciclev10009756mscaffold_12559249425593617J C_unshiu_00066:mRNA_75.1C_unshiu_0006650099250183317.9 kDa class II heat shock proteinAGI-0126.428KmG-0119.692JtR-01S57.666RP-0169.936
Ov0320 ------TP Ciclev10005968mscaffold_92764007427641178J C_unshiu_00252:mRNA_13.1C_unshiu_00252892819019821 kDa proteinRP-0356.919
Al0008 ------TP Ciclev10001908mscaffold_54031772140321609J C_unshiu_00054:mRNA_1.1C_unshiu_000545765867426S proteasome non-ATPase regulatory subunit 14SA-0950.699
Af1031 O-----TP Ciclev10025711mscaffold_7718488722516J C_unshiu_00353:mRNA_22.1C_unshiu_003531511451546793-dehydroquinate synthase AroBAGI-0276.168
Bf0182 O-----TP Ciclev10009454mscaffold_11783133317834889J C_unshiu_00429:mRNA_12.1C_unshiu_0042990883942963-deoxy-D-manno-octulosonate cytidylyltransferaseAGI-0147.439
Cp1500 ------TP Ciclev10004776mscaffold_970802497086989J C_unshiu_00161:mRNA_19.1C_unshiu_001611505191572063-isopropylmalate dehydratase large subunitAGI-0346.274
Mf0010 Bno homozygous cultivar with minor allele ------SI048,SI149TP Ciclev10032902mscaffold_41946766919468803J C_unshiu_00099:mRNA_4.1C_unshiu_00099124461335730S ribosomal protein 3, chloroplasticAGI-0755.503KmG-0742.271JtR-0735.215NAT-07
Cp1598 AAvailable marker ----OOTP Ciclev10021001mscaffold_338023873805494J C_unshiu_00849:mRNA_13.2C_unshiu_00849729357582431 kDa ribonucleoproteinAGI-0512.715
Fb0301 AAvailable marker ----OOSI053TP Ciclev10014804mscaffold_21414353714146003J C_unshiu_00466:mRNA_1.1C_unshiu_0046613811161784-coumarate:coenzyme A ligase 4AGI-0692.727KmG-06RP-06.116.627
Af1513 ------TP Ciclev10006024mscaffold_92952378629526379J C_unshiu_00056:mRNA_24.1C_unshiu_0005618128218315140S ribosomal protein S10AGI-0363.545
Ov0305 MDisagree by Marco analysis O-----SI028,SI292TP Ciclev10012499mscaffold_61690949216912088J C_unshiu_00008:mRNA_65.1C_unshiu_0000836694336950440S ribosomal protein S4AGI-0888.433KmG-0445.755RP-0415.410
Ov0318 ULess informative for main cultivars ------TP Ciclev10012779mscaffold_61940528519407278J C_unshiu_00273:mRNA_20.1C_unshiu_0027310325010518340S ribosomal protein S5
Lp0108 AAvailable marker -----OTP Ciclev10026340mscaffold_755546195556993J C_unshiu_00761:mRNA_5.1C_unshiu_00761187042107240S ribosomal protein S6KmG-0241.508JtR-0218.351
Ov0005 AAvailable marker ----OOSI243,SI331TP Ciclev10019557mscaffold_34163661641641083J C_unshiu_02126:mRNA_2.1C_unshiu_021269391133195-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferaseAGI-0547.986
Ov0122 OOthers ------TP Ciclev10019557mscaffold_34163661641641083J C_unshiu_01535:mRNA_2.2C_unshiu_0153514018190805-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferaseKmG-05S65.738JtR-0541.268
Cp1361 AAvailable marker ----OOTP Ciclev10013042mscaffold_62171471621717652J C_unshiu_01167:mRNA_14.1C_unshiu_01167790368180850S ribosomal 5 alpha, chloroplasticAGI-0452.740
Em0001 ------TP Ciclev10016968mscaffold_23192734231929229J C_unshiu_00027:mRNA_54.1C_unshiu_0002734506734672750S ribosomal protein L14, chloroplasticAGI-0635.643
Cp2154 ------SI164TP Ciclev10009584mscaffold_12046286020465557J C_unshiu_00670:mRNA_8.1C_unshiu_00670445024712150S ribosomal protein L24, chloroplastic
Lp0041 AAvailable marker -----OTP Ciclev10006136mscaffold_963547966356630J C_unshiu_00146:mRNA_22.1C_unshiu_0014620527920701450S ribosomal protein L28KmG-03217.549JtR-03114.643RP-0329.608
Af1456 ------TP Ciclev10006136mscaffold_963547966356630J C_unshiu_00146:mRNA_22.1C_unshiu_0014620527920701450S ribosomal protein L28AGI-0346.298
Lp0019 MDisagree by Marco analysis ------TP Ciclev10026623mscaffold_72092263120924709J C_unshiu_00622:mRNA_2.1C_unshiu_00622286303058350S ribosomal protein L29, chloroplasticKmG-024.377JtR-02-6.938
Cp0635 AAvailable marker O-O-OOJ C_unshiu_00337:mRNA_4.1C_unshiu_00337115961530750S ribosomal protein L4AGI-0617.029
Cp2210 AAvailable marker -----OTP Ciclev10007886mscaffold_181252798130885J C_unshiu_00744:mRNA_3.1C_unshiu_0074419836253206-phosphofructokinase isoform 1
Af1332 ------TP Ciclev10013051mscaffold_62083442720836151J C_unshiu_00052:mRNA_57.1C_unshiu_0005245595945768460S acidic ribosomal proteinAGI-04
Ov0002 AAvailable marker O---OOSI110,SI179TP Ciclev10032770mscaffold_424228612424838J C_unshiu_00979:mRNA_13.2C_unshiu_00979505085247860S ribosomal protein L10AGI-0713.657JtR-0768.221RP-0782.035
Ov0027Ov0027.em ------TP Ciclev10009797mscaffold_184171588419377J C_unshiu_00584:mRNA_9.1C_unshiu_00584740897626660S ribosomal protein L28AGI-0351.749
Mf0088 OOthers O-----TP Ciclev10001453mscaffold_551040675106917J C_unshiu_00108:mRNA_11.1C_unshiu_0010810128310549360S ribosomal protein L3RP-09
Ov0503 AtAvailable marker O----OTP Ciclev10020582mscaffold_32838221828386683J C_unshiu_00585:mRNA_5.1C_unshiu_00585316363482460S ribosomal protein L5NAT-0519.042
Gn0056 ------TP Ciclev10020582mscaffold_32838221828386683J C_unshiu_00585:mRNA_5.1C_unshiu_00585316363482460S ribosomal protein L5AGI-0539.424
Al0407 AAvailable marker O---OOTP Ciclev10009315mscaffold_12657605926578193J C_unshiu_00131:mRNA_17.1C_unshiu_0013112115212318360S ribosomal protein L7AGI-0131.240KmG-0115.673JtR-01S57.666RP-0179.425
If0010 AAvailable marker O---O-TP Ciclev10026308mscaffold_712649651266960J C_unshiu_00218:mRNA_11.1C_unshiu_00218634036501860S ribosomal protein L8AGI-0273.759KmG-0276.687JtR-0210.849NAT-02S71.041
Fb1430Fb1430.lg O-----TP Ciclev10005994mscaffold_918796751880523J C_unshiu_00102:mRNA_3.1C_unshiu_00102165071733460S ribosome subunit biogenesis protein NIP7 homologAGI-03
Gn0064 ULess informative for main cultivars O-----SI144,SI380TP Ciclev10019364mscaffold_32935185429354190J C_unshiu_00549:mRNA_6.1C_unshiu_0054939588419219-cis-epoxycarotenoid dioxygenase 1AGI-0542.191RP-0551.531
Bf0110 ------SI297TP Ciclev10014639mscaffold_23523551735237892J C_unshiu_00048:mRNA_48.1C_unshiu_000483064123086209-cis-epoxycarotenoid dioxygenase 1
Gn0061.2 MDisagree by Marco analysis O-----TP Ciclev10031014mscaffold_42550060125505812J C_unshiu_00001:mRNA_343.1C_unshiu_00001219101721998249-cis-epoxycarotenoid dioxygenase 4AGI-0620.248
Gn0071 Bno homozygous cultivar with minor allele O-----SI363TP Ciclev10031039mscaffold_42550644625511133J C_unshiu_00001:mRNA_343.1C_unshiu_00001219101721998249-cis-epoxycarotenoid dioxygenase 4AGI-0786.113
Lp0208 ------TP Ciclev10018482mscaffold_34570436145713084J C_unshiu_00326:mRNA_24.1C_unshiu_00326146528154002ABC transporter C family member 3AGI-0315.136NAT-0328.397
Cp0336 ------TP Ciclev10004655mscaffold_93124444031250356J C_unshiu_00003:mRNA_113.1C_unshiu_00003809668815079ABC transporter D family member 2, chloroplasticAGI-0379.515
Cp1483 ------TP Ciclev10020574mscaffold_32076297420770394J C_unshiu_00692:mRNA_14.1C_unshiu_00692122321129331Abhydrolase domain-containing protein 11AGI-0541.162
Tf0350 OOthers O-----SI132TP Ciclev10019034mscaffold_389147448921411J C_unshiu_00695:mRNA_7.1C_unshiu_006957148377987Acetyl-coenzyme A synthetaseAGI-0543.295
Cp0249 ------TP Ciclev10001084mscaffold_53948064739484776J C_unshiu_00457:mRNA_14.1C_unshiu_004579654099356Acetyltransferase component of pyruvate dehydrogenase complexAGI-0941.336
Al0329 AAvailable marker O---OOSI185TP Ciclev10025866mscaffold_71720123617204282J C_unshiu_00421:mRNA_21.2C_unshiu_00421196945199790ActinAGI-0225.162KmG-0211.218JtR-027.174NAT-02S5.552RP-028.191
Mf0090 AAvailable marker -O--OOTP Ciclev10025866mscaffold_71720123617204282J C_unshiu_00421:mRNA_21.2C_unshiu_00421196945199790ActinAGI-0225.869KmG-0211.182JtR-023.182RP-028.191
Al0319 Bno homozygous cultivar with minor allele O-----TP Ciclev10022720mscaffold_34344794243449920J C_unshiu_00411:mRNA_15.1C_unshiu_00411140821145311Actin-depolymerizing factor 2AGI-0346.274KmG-05S65.273JtR-0542.339RP-0572.912
Lp0219 ------TP Ciclev10032329mscaffold_461289526131314J C_unshiu_01202:mRNA_8.1C_unshiu_012025769160017Acyl-CoA N-acyltransferases superfamily protein isoform 1AGI-0161.636NAT-01S60.000
Cp0185 ------TP Ciclev10002024mscaffold_53455836234564638J C_unshiu_00190:mRNA_33.1C_unshiu_00190230947237587Adenine phosphoribosyltransferaseAGI-0351.129
Lp0013 ------TP Ciclev10004852mscaffold_91697126416973312J C_unshiu_00122:mRNA_43.1C_unshiu_00122389000391027AdenosylhomocysteinaseKmG-0915.606
Af1679 ------TP Ciclev10021896mscaffold_342601264262819J C_unshiu_00186:mRNA_34.1C_unshiu_00186288266290432Adenylate kinaseAGI-0529.035
Mf0084 OOthers ------SI383TP Ciclev10012898mscaffold_64038143868J C_unshiu_01371:mRNA_1.1C_unshiu_013711774621242ADP-ribosylation factor A1FAGI-04114.409KmG-0466.806JtR-0411.413
Ov0127Ov0126.2 ------SI124,SI284TP Ciclev10022482mscaffold_34681490946817474J C_unshiu_00053:mRNA_57.3C_unshiu_00053477728479995ADP-ribosylation factor A1FAGI-0565.510KmG-05S81.631JtR-0545.715RP-0564.195
Ov0525 ULess informative for main cultivars O-----TP Ciclev10015260mscaffold_21583314215836770J C_unshiu_01875:mRNA_4.1C_unshiu_018753598339196ADP/ATP translocase 1AGI-0691.522SA-0627.092
Gn0040 AAvailable marker ----OOSI015,SI337TP Ciclev10033176mscaffold_41623275616233365J C_unshiu_00086:mRNA_13.2C_unshiu_0008699963109609AG MADS-box proteinAGI-0743.542KmG-0756.094JtR-0748.672
Tf0320 ------SI203TP Ciclev10033829mscaffold_41622377116226683J C_unshiu_00086:mRNA_13.2C_unshiu_0008699963109609AG MADS-box proteinAGI-0745.716
Tf0043 ------TP Ciclev10032519mscaffold_42482026924824732J C_unshiu_00001:mRNA_295.1C_unshiu_0000118713011874281Agamous-like MADS-box protein AGL15AGI-0784.593
Gn0037 ------TP Ciclev10032578mscaffold_42104204921048279J C_unshiu_00010:mRNA_111.3C_unshiu_00010823068829158Agamous-like MADS-box protein AGL9 homologAGI-0855.656
Tf0005.2 AAvailable marker O----OTP Ciclev10032578mscaffold_42104204921048279J C_unshiu_00010:mRNA_111.3C_unshiu_00010823068829158Agamous-like MADS-box protein AGL9 homolog
Tf0059 ------SI101TP Ciclev10007297mscaffold_11288372212897805J C_unshiu_00450:mRNA_3.1C_unshiu_004503695658462AGC family Serine/Threonine kinase family proteinAGI-0156.416
Af1447 ------TP Ciclev10031155mscaffold_42280299522807340J C_unshiu_00004:mRNA_35.1C_unshiu_00004275820279748Aldehyde dehydrogenaseAGI-0770.744
Ov0012 ------TP Ciclev10019638mscaffold_329331212937460J C_unshiu_00092:mRNA_50.1C_unshiu_00092356984361021Aldehyde dehydrogenaseKmG-05S100.000
Bf0150 ------SI316,SI370TP Ciclev10004834mscaffold_93101883631027361J C_unshiu_00003:mRNA_85.1C_unshiu_00003596288610960Aldehyde dehydrogenaseAGI-0377.920RP-0377.748
Cp0085 O-----TP Ciclev10012552mscaffold_62336430323366061J C_unshiu_00098:mRNA_21.1C_unshiu_00098143026144827Allene oxide cyclaseAGI-0442.183
Al0020 OOthers ------TP Ciclev10012552mscaffold_62336430323366061J C_unshiu_00098:mRNA_21.1C_unshiu_00098143026144827Allene oxide cyclaseKmG-04
Cp0452 AAvailable marker ----OOTP Ciclev10030661mscaffold_42357539923582495J C_unshiu_00001:mRNA_85.1C_unshiu_00001566935573821Alpha-amylase-like 3 isoform 1AGI-0775.350
Cp0813 ------SI047TP Ciclev10011980mscaffold_62063804920641557J C_unshiu_00046:mRNA_46.1C_unshiu_00046406041409549Alpha/beta fold hydrolaseAGI-0458.655
Cp0077 O-----TP Ciclev10015497mscaffold_298491339852098J C_unshiu_00049:mRNA_29.1C_unshiu_00049210181212829Altered inheritance of mitochondria protein 32AGI-0854.867
If0003 Bno homozygous cultivar with minor allele ------SI130TP Ciclev10015433mscaffold_23547007835472862J C_unshiu_00048:mRNA_13.1C_unshiu_000486465267377AminomethyltransferaseAGI-0618.136JtR-06S67.371
Wy0003 AAvailable marker O---OOTP Ciclev10001202mscaffold_53718965337192231J C_unshiu_00144:mRNA_30.1C_unshiu_00144215223217733AminotransferaseAGI-0946.823KmG-0952.581NAT-0969.467
Bf0116 ------SI260TP Ciclev10015490mscaffold_276627537667440J C_unshiu_00729:mRNA_11.1C_unshiu_007298141586474Aminotransferase 2AGI-06133.800RP-06.128.601
Tf0221 ------SI057,SI225TP Ciclev10025996mscaffold_7490750492882J C_unshiu_00488:mRNA_7.1C_unshiu_004884481348259Ankyrin repeat domain-containing protein, chloroplasticAGI-0281.212
Bf0021 O-----TP Ciclev10031010mscaffold_410588251062698J C_unshiu_00012:mRNA_26.1C_unshiu_00012227838231495Anthranilate synthase component IRP-0752.587
Af1086 ------TP Ciclev10031563mscaffold_41051001810517939J C_unshiu_00028:mRNA_1.2C_unshiu_00028411512036AP-2 complex subunit muAGI-0541.306
Tf0337 AAvailable marker O---OOTP Ciclev10031846mscaffold_41963541519637061J C_unshiu_00099:mRNA_23.1C_unshiu_00099186480188051Ap2 erf and b3 domain-containing transcription factor rav2AGI-0754.869
Cp0384 AAvailable marker O---OOTP Ciclev10015162mscaffold_23542259835425980J C_unshiu_00048:mRNA_23.2C_unshiu_00048111764114820APS reductaseAGI-0619.002
Tf0424 ------TP Ciclev10031190mscaffold_42390818923912723J C_unshiu_00001:mRNA_134.1C_unshiu_00001904872908655ApyraseAGI-0777.041
Lp0021 AtAvailable marker O----OTP Ciclev10021502mscaffold_317716681774647J C_unshiu_00534:mRNA_8.2C_unshiu_005345350855845Aquaporin
Af1091 O-----TP Ciclev10021043mscaffold_34331604643317909J C_unshiu_00411:mRNA_2.1C_unshiu_004111151013352Arabinose 5-phosphate isomeraseAGI-0552.655
Fb0321 MDisagree by Marco analysis O-----TP Ciclev10027873mscaffold_868344876837762J C_unshiu_00918:mRNA_1.1C_unshiu_0091850107626Arginine decarboxylase 1AGI-0856.405JtR-0825.280
Af1515 ------TP Ciclev10027760mscaffold_82083805320844872J C_unshiu_00883:mRNA_4.1C_unshiu_0088360978104832Argonaute 1AGI-0840.438
Lp0229 O-----TP Ciclev10015636mscaffold_22463705324639946J C_unshiu_00136:mRNA_24.1C_unshiu_00136221432223640ARM repeat superfamily proteinRP-06.125.198
Al0201 ULess informative for main cultivars ------TP Ciclev10014752mscaffold_23278083032782885J C_unshiu_00153:mRNA_49.1C_unshiu_00153346248348256Armadillo/beta-catenin-like repeat family protein, expressed
Ov0121 HDisagree on Clementine haploid genotype ------TP Ciclev10028359mscaffold_82035223220354410J C_unshiu_00320:mRNA_8.1C_unshiu_003208692988531Arogenate dehydrataseNAT-081
Ov0125 AAvailable marker ----OOTP Ciclev10028359mscaffold_82035223220354410J C_unshiu_00320:mRNA_8.1C_unshiu_003208692988531Arogenate dehydrataseAGI-0841.398
Ks9003 AAvailable marker -----OTP Ciclev10014733mscaffold_284361108440408J C_unshiu_00494:mRNA_1.1C_unshiu_00494701411146Ascorbate oxidaseKmG-0919.560JtR-09S5.836
Ov0526 OOthers ------TP Ciclev10001212mscaffold_52152243321525218J C_unshiu_00201:mRNA_11.2C_unshiu_00201136005138785Aspartic proteinase nepenthesin-1KmG-09JtR-09S0.758NAT-09
Gn0046 ------TP Ciclev10001212mscaffold_52152243321525218J C_unshiu_00201:mRNA_11.2C_unshiu_00201136005138785Aspartic proteinase nepenthesin-1AGI-0764.812JtR-0823.181
Tf0152 AAvailable marker O---OOTP Ciclev10021000mscaffold_320024272008126J C_unshiu_01105:mRNA_2.1C_unshiu_0110536818106AT-hook motif nuclear localized protein 1AGI-058.506
Tf0032 AAvailable marker O---OOTP Ciclev10026014mscaffold_79415597631J C_unshiu_00706:mRNA_8.1C_unshiu_007065152554837AT-hook motif nuclear-localized protein 10AGI-0278.531
Fb0369 ------TP Ciclev10019885mscaffold_377921887795727J C_unshiu_01545:mRNA_3.1C_unshiu_015453755939424AT-rich interactive domain-containing protein 2AGI-0544.172KmG-05S30.809JtR-0516.246
Tf0195 MDisagree by Marco analysis O-----TP Ciclev10030351mscaffold_86799774191J C_unshiu_01137:mRNA_4.1C_unshiu_011373083736569AT-rich interactive domain-containing protein 3AGI-0887.683
Tf0168 AAvailable marker OO-OOOSI175TP Ciclev10007563mscaffold_12489876924905716J C_unshiu_00341:mRNA_22.1C_unshiu_00341170777178753AT-rich interactive domain-containing protein 4AGI-0125.752
Cp0415 ------TP Ciclev10011681mscaffold_62221354422219300J C_unshiu_00074:mRNA_13.1C_unshiu_000748130186950ATA15 proteinAGI-0450.134
Cp0747 ------TP Ciclev10015418mscaffold_21108496011088767J C_unshiu_00184:mRNA_32.1C_unshiu_00184282295285277ATP synthase protein IAGI-0985.816
Lp0112 AAvailable marker O-----TP Ciclev10032923mscaffold_437498093751724J C_unshiu_00236:mRNA_28.1C_unshiu_00236161422163318ATP synthase subunit d, mitochondrialAGI-0719.603RP-0750.962
Cp1887 MDisagree by Marco analysis ------TP Ciclev10010991mscaffold_62519361725201413J C_unshiu_00009:mRNA_34.1C_unshiu_00009183041190334ATP-dependent chaperone ClpB
Cp0076 O-----TP Ciclev10021577mscaffold_363291336332201J C_unshiu_01248:mRNA_3.1C_unshiu_012483903142057ATP-dependent Clp protease, proteolytic subunit ClpPAGI-0535.411
Cp0297 ------TP Ciclev10028989mscaffold_821354452138606J C_unshiu_00024:mRNA_26.2C_unshiu_00024197656201866ATP-dependent Clp protease, proteolytic subunit ClpPAGI-0878.209
Cp0419 AAvailable marker -O--OOTP Ciclev10002215mscaffold_52881531428816638J C_unshiu_00758:mRNA_1.1C_unshiu_007587944329ATP-dependent Clp protease, proteolytic subunit ClpPAGI-0988.739SA-0944.226
Cp0895 AAvailable marker ----OOTP Ciclev10011406mscaffold_61924170019246874J C_unshiu_00089:mRNA_3.1C_unshiu_00089994514749ATP-dependent RNA helicaseAGI-0467.375
Bf0174 O-----SI282TP Ciclev10019861mscaffold_335515423555978J C_unshiu_00120:mRNA_17.1C_unshiu_00120130029134158Atp-dependent RNA helicaseAGI-0525.049
Fb0373 O-----TP Ciclev10000030mscaffold_564044636435349J C_unshiu_00034:mRNA_15.1C_unshiu_00034150102178260ATP-dependent RNA helicase DHX29AGI-0985.810KmG-0922.909JtR-09S7.995RP-090.104
Cp1885 AAvailable marker -----OTP Ciclev10014471mscaffold_21141833111422116J C_unshiu_01218:mRNA_4.1C_unshiu_012181408422447ATP-dependent zinc metalloprotease FTSH 2, chloroplastic
Tf0029 ------TP Ciclev10027901mscaffold_82188737221893128J C_unshiu_00500:mRNA_16.1C_unshiu_00500147319151840Auxin response factorAGI-0827.318
Wy0056Wy0056.em AAvailable marker ----OOTP Ciclev10014198mscaffold_23174043131747095J C_unshiu_00027:mRNA_81.1C_unshiu_00027521555527308Auxin response factorAGI-0636.788
Tf0304 ------TP Ciclev10000491mscaffold_5953167960232J C_unshiu_00033:mRNA_32.1C_unshiu_00033311804317751Auxin response factorAGI-09113.306
Tf0065 ------SI142TP Ciclev10030696mscaffold_41394579513951313J C_unshiu_00357:mRNA_3.1C_unshiu_003573518939739Auxin response factorAGI-0741.876
Tf0345 ------SI011TP Ciclev10027918mscaffold_82224812922254029J C_unshiu_00639:mRNA_3.1C_unshiu_006393184237665Auxin response factor
Tf0311 AAvailable marker O---OOTP Ciclev10011596mscaffold_61593201615936176J C_unshiu_00779:mRNA_8.1C_unshiu_007797810581377Auxin transporter-like protein 2AGI-0891.890
Tf0300 AAvailable marker OO--OOTP Ciclev10022370mscaffold_34386244043863744J C_unshiu_01051:mRNA_10.1C_unshiu_010518341784406Auxin-induced protein IAA4AGI-0554.726
Tf0172 O-----TP Ciclev10026400mscaffold_799766219980176J C_unshiu_00496:mRNA_5.1C_unshiu_004964806950951Auxin-induced protein IAA6AGI-0210.638
Tf0036 AAvailable marker O---OOTP Ciclev10022032mscaffold_34385026943852816J C_unshiu_01051:mRNA_11.1C_unshiu_010519436996339Auxin-responsive protein IAA14AGI-0553.260
Tf0149 HDisagree on Clementine haploid genotype O-----SI128,SI269TP Ciclev10002290mscaffold_52940084629403554J C_unshiu_00110:mRNA_26.1C_unshiu_00110160409163111Auxin-responsive protein IAA16AGI-0985.976RP-0932.826
Tf0093.2 AAvailable marker O---OOTP Ciclev10002569mscaffold_52941314329414562J C_unshiu_00110:mRNA_25.1C_unshiu_00110149681150624Auxin-responsive protein IAA4AGI-0986.512
Tf0393 AAvailable marker O----OTP Ciclev10002569mscaffold_52941314329414562J C_unshiu_00110:mRNA_25.1C_unshiu_00110149681150624Auxin-responsive protein IAA4RP-0929.347
Tf0061 ------SI150,SI186TP Ciclev10001592mscaffold_53515969035164384J C_unshiu_00764:mRNA_4.1C_unshiu_007643089936628Auxin-responsive protein IAA8AGI-0961.651
Tf0325 OOthers O-----TP Ciclev10029355mscaffold_867004416703748J C_unshiu_02974:mRNA_2.1C_unshiu_029741014213418B-box type zinc finger family proteinAGI-0857.386
Al0239 Bno homozygous cultivar with minor allele ------TP Ciclev10026364mscaffold_71618581816187223J C_unshiu_00371:mRNA_7.1C_unshiu_003715465356423B-box type zinc finger protein, putative
Af3023 ------TP Ciclev10026364mscaffold_71618581816187223J C_unshiu_00371:mRNA_7.1C_unshiu_003715465356423B-box type zinc finger protein, putativeAGI-0221.337
Af2596 ------TP Ciclev10002840mscaffold_53815497538155769J C_unshiu_00319:mRNA_29.1C_unshiu_00319189073189599Basic blue proteinAGI-0957.830
Af1205 ------TP Ciclev10002396mscaffold_53416172134162652J C_unshiu_00196:mRNA_4.1C_unshiu_001961521916117Basic helix-loop-helix DNA-binding superfamily protein, putativeAGI-0964.754
Tf0088 MDisagree by Marco analysis O-----SI066TP Ciclev10001291mscaffold_54127520141278829J C_unshiu_00127:mRNA_34.1C_unshiu_00127251592254627Basic helix-loop-helix DNA-binding superfamily protein, putative isoform 1AGI-0935.763
Tf0070 OOthers O-----SI277TP Ciclev10002250mscaffold_53974875439753073J C_unshiu_01089:mRNA_6.1C_unshiu_010892264326826Basic helix-loop-helix family proteinAGI-0945.029
Al0029 Bno homozygous cultivar with minor allele O-----J C_unshiu_00305:mRNA_10.1C_unshiu_003056993873026Basic helix-loop-helix transcription factorAGI-0137.357JtR-01S50.000
Tf0356 ------SI134,SI160TP Ciclev10029063mscaffold_89982891001763J C_unshiu_00041:mRNA_95.3C_unshiu_00041588335591780Basic-leucine zipper (BZIP) transcription factor familyAGI-0883.743
Wy0006 O-----TP Ciclev10021901mscaffold_349035924905871J C_unshiu_00628:mRNA_6.1C_unshiu_006283841940239Bax inhibitor 1KmG-05S19.072JtR-0519.698NAT-0521.803
Bf0165 ------SI280TP Ciclev10021901mscaffold_349035924905871J C_unshiu_00628:mRNA_6.1C_unshiu_006283841940239Bax inhibitor 1AGI-0529.035NAT-0523.083RP-0519.690
Bf0415 ------J C_unshiu_00643:mRNA_7.1C_unshiu_00643115076117637BEL1-like homeodomain protein 1AGI-0846.736
Em0003 ------TP Ciclev10011201mscaffold_61984088119844299J C_unshiu_00043:mRNA_48.1C_unshiu_00043360776363775BEL1-like homeodomain protein 1AGI-0856.724
Tf0258 ------SI234TP Ciclev10000508mscaffold_54137251341377106J C_unshiu_00127:mRNA_21.1C_unshiu_00127163658166645BEL1-like homeodomain protein 6
Tf0405 ------TP Ciclev10027952mscaffold_860258026031497J C_unshiu_00220:mRNA_2.1C_unshiu_002204814853214BEL1-like homeodomain protein 6AGI-0861.643
Em0005Fb1892.em ------J C_unshiu_00168:mRNA_8.1C_unshiu_001687638680254BEL1-like homeodomain protein 9AGI-07
Gn0014.2 Bno homozygous cultivar with minor allele O-----TP Ciclev10005481mscaffold_92948865829491181J C_unshiu_00056:mRNA_20.1C_unshiu_00056144107146527Beta-carotene hydroxylase 1
Fb0478 ------TP Ciclev10008010mscaffold_11459224814596429J C_unshiu_00071:mRNA_18.1C_unshiu_00071196512200666Beta-glucosidase 44AGI-0161.025
Cp1556 Bno homozygous cultivar with minor allele ------TP Ciclev10018756mscaffold_32143249421440948J C_unshiu_00175:mRNA_9.1C_unshiu_001759133899600Bifunctional aspartokinase/homoserine dehydrogenase 2, chloroplasticAGI-0540.337
Af1639 ------TP Ciclev10012116mscaffold_62346248723466580J C_unshiu_00098:mRNA_36.1C_unshiu_00098239683243712Bifunctional dihydroflavonol 4-reductase/flavanone 4-reductase isoform 1AGI-046.635
Lp0211 O-----TP Ciclev10009567mscaffold_12581694925818472J C_unshiu_00066:mRNA_48.1C_unshiu_00066279404280861Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein isoform 1AGI-0130.175RP-0124.533
Cp1427 AAvailable marker ----OOTP Ciclev10021746mscaffold_34557686345579197J C_unshiu_00326:mRNA_5.1C_unshiu_003262307325265Bifunctional protein FolDAGI-0558.917
Al0039 ------J C_unshiu_00018:mRNA_107.1C_unshiu_00018723553725648Bifunctional protein FolDAGI-0595.305
Fb0110 O-----SI246TP Ciclev10000900mscaffold_585123808517835J C_unshiu_00033:mRNA_4.1C_unshiu_000333775543368Bifunctional protein thiEDAGI-0985.810KmG-0923.401JtR-09S5.362
Gmom03 ------TP Ciclev10019436mscaffold_318646041871328J C_unshiu_01325:mRNA_3.1C_unshiu_01325787614474Bromo-adjacent-like (BAH) domain proteinAGI-057.888
Ov0520 OOthers O-----TP Ciclev10029053mscaffold_847123934713689J C_unshiu_00438:mRNA_3.1C_unshiu_004383434335619BURP domain-containing proteinAGI-0833.144JtR-0826.748
Tf0021 AAvailable marker -----OTP Ciclev10011169mscaffold_62190555721908832J C_unshiu_00079:mRNA_39.1C_unshiu_00079273228275864BZIP transcription factor family protein
Af1499 ------TP Ciclev10011169mscaffold_62190555721908832J C_unshiu_00079:mRNA_39.1C_unshiu_00079273228275864BZIP transcription factor family proteinAGI-04
Tf0335 ------SI014,SI168TP Ciclev10033529mscaffold_424577982458868J C_unshiu_00979:mRNA_19.1C_unshiu_009798539086600C2 domain proteinAGI-0713.855
Tf0019 ------SI056,SI347TP Ciclev10001255mscaffold_54188129741883386J C_unshiu_00009:mRNA_161.1C_unshiu_0000910493241051358C2H2-like zinc finger proteinAGI-0934.799
Lp0004 OOthers ------TP Ciclev10026144mscaffold_71537681815378771J C_unshiu_00703:mRNA_1.1C_unshiu_0070327934693C6HC-type zinc finger RING/U-box proteinAGI-0220.292KmG-0215.368RP-0211.119
Cp0089 Bno homozygous cultivar with minor allele O-O---TP Ciclev10032543mscaffold_42385883023861090J C_unshiu_00001:mRNA_128.1C_unshiu_00001852968856494CAAX amino terminal protease family proteinAGI-0777.194
Ov0013 OOthers ------TP Ciclev10005251mscaffold_91805838718060752J C_unshiu_00556:mRNA_14.1C_unshiu_00556103101105466Caffeic acid 3-O-methyltransferaseAGI-0350.691KmG-03218.852JtR-03111.918RP-0338.986
Bf0030 O-----TP Ciclev10022841mscaffold_34645289346453717J C_unshiu_00627:mRNA_10.1C_unshiu_006274521545931Calvin cycle protein CP12RP-0558.661
Bf0212 ------SI332TP Ciclev10016442mscaffold_292066869211152J C_unshiu_00004:mRNA_52.2C_unshiu_00004401860406444Carbonate dehydrataseAGI-06117.593
Gn0066.2 HDisagree on Clementine haploid genotype O-----TP Ciclev10011230mscaffold_61957817919583475J C_unshiu_00043:mRNA_12.1C_unshiu_000439021294791Carotenoid isomeraseAGI-04
Bf1192 ------TP Ciclev10008160mscaffold_11067865310684627J C_unshiu_00242:mRNA_11.1C_unshiu_00242100038105603Casein kinase I-like proteinAGI-0157.863
Af1177 ------TP Ciclev10005989mscaffold_921683872170546J C_unshiu_00085:mRNA_13.1C_unshiu_000857834180308CASP-like protein 1E1AGI-0318.579
Al0317 ------TP Ciclev10021392mscaffold_330062183008357J C_unshiu_00092:mRNA_60.1C_unshiu_00092425854427887CASP-like protein 4A2KmG-05S16.871JtR-059.525
Al0223 ------TP Ciclev10011771mscaffold_61743827017440122J C_unshiu_00008:mRNA_127.1C_unshiu_00008890026891371CBL-interacting serine/threonine-protein kinase 11RP-0417.965
Al0014 O-----SI058,SI153,SI312TP Ciclev10008225mscaffold_110703731072218J C_unshiu_00005:mRNA_43.1C_unshiu_00005281165283012CBL-interacting serine/threonine-protein kinase 20AGI-0197.525RP-013.295
Af1379 ------TP Ciclev10026357mscaffold_734561053460607J C_unshiu_00301:mRNA_21.2C_unshiu_00301134429138770CBS domain-containing protein CBSX1, chloroplasticAGI-0268.467
Cp1624 AAvailable marker -O-OOOSI307TP Ciclev10008537mscaffold_11806829718070262J C_unshiu_00187:mRNA_17.1C_unshiu_0018799220100762CBS domain-containing protein CBSX5AGI-0158.420KmG-0153.054
Cp1216 AAvailable marker ----OOTP Ciclev10017113mscaffold_21211279012113903J C_unshiu_00026:mRNA_6.1C_unshiu_000264665847677CCR proteinAGI-0676.905
Tf0271 Bno homozygous cultivar with minor allele OO-O--TP Ciclev10010976mscaffold_61170795311715646J C_unshiu_01619:mRNA_7.1C_unshiu_016194234750640CCR4-NOT transcription complex subunit 4AGI-0895.613
Al0037 ------TP Ciclev10026259mscaffold_71431010014311942J C_unshiu_02045:mRNA_3.1C_unshiu_020451741419393CCR4-NOT transcription complex subunit 7AGI-0215.816
Al0037.2Al0037.k O-----TP Ciclev10026259mscaffold_71431010014311942J C_unshiu_02045:mRNA_3.1C_unshiu_020451741419393CCR4-NOT transcription complex subunit 7AGI-0215.816
Cp1852 ------TP Ciclev10010530mscaffold_12271166822715696J C_unshiu_00103:mRNA_19.2C_unshiu_00103116559121057Cell differentiation protein rcd1AGI-029.592
Fb0326 O-----TP Ciclev10002506mscaffold_54305157943053394J C_unshiu_00370:mRNA_38.1C_unshiu_00370207050209216Cell division control protein 2AGI-098.959RP-0978.225
Cp1584 AAvailable marker -----OTP Ciclev10031523mscaffold_4201556204527J C_unshiu_00168:mRNA_36.1C_unshiu_00168285304287905Cell division cycle 20.1, cofactor of APC complex
Tf0353 MDisagree by Marco analysis O-----SI087TP Ciclev10018691mscaffold_33469666134702240J C_unshiu_00669:mRNA_17.2C_unshiu_00669126539133312Cell division cycle 5-like proteinAGI-0853.069
Cp1111 MDisagree by Marco analysis ------TP Ciclev10024860mscaffold_786034508610239J C_unshiu_00290:mRNA_28.1C_unshiu_00290241335248051Cell division protein ftsH, putative isoform 1AGI-025.054
Ov0413 ------TP Ciclev10028322mscaffold_81780942817813065J C_unshiu_00225:mRNA_26.1C_unshiu_00225238952242235Cellular nucleic acid-binding protein likeKmG-0734.263
Al0632 HDisagree on Clementine haploid genotype O-----TP Ciclev10028775mscaffold_81780942817813065J C_unshiu_00225:mRNA_26.1C_unshiu_00225238952242235Cellular nucleic acid-binding protein likeAGI-0856.724JtR-0818.952
Af1424 ------TP Ciclev10008953mscaffold_11868887318690138J C_unshiu_00137:mRNA_44.1C_unshiu_00137354434355481CFE proteinAGI-0143.613
Lp0232 O-----TP Ciclev10030590mscaffold_42112013521127140J C_unshiu_00010:mRNA_105.1C_unshiu_00010751317757205CHASE-domain containing histidine kinase 1RP-0719.079
Fb1227 ------TP Ciclev10004375mscaffold_933677183376062J C_unshiu_00051:mRNA_60.1C_unshiu_00051463042471084Chloride channel proteinAGI-0319.631
Ov0403 AAvailable marker O---OOSI136,SI298,SI325TP Ciclev10016280mscaffold_22389181423893095J C_unshiu_00081:mRNA_50.1C_unshiu_00081296655297936Chlorophyll a/b binding proteinAGI-0661.779KmG-0612.610JtR-06S
Fb0827 O-----SI215,SI301TP Ciclev10004432mscaffold_923534422357780J C_unshiu_00394:mRNA_9.1C_unshiu_003944171945690Chloroplast 1-deoxy-D-xylulose-5-phosphate synthaseAGI-0319.017KmG-03116.544JtR-034
Al0413 AAvailable marker ---OOOSI275,SI299TP Ciclev10004620mscaffold_975799007583093J C_unshiu_00063:mRNA_61.1C_unshiu_00063483279486427Chloroplast beta-amylase 3AGI-0346.197KmG-03219.570JtR-03110.395RP-0333.559
Cp1627 AAvailable marker ----OOTP Ciclev10022024mscaffold_31330939813310636J C_unshiu_00431:mRNA_6.1C_unshiu_004314450745451Chloroplast small heat shock proteinAGI-0541.272
Bf0031 O-----TP Ciclev10031547mscaffold_440775574083819J C_unshiu_00306:mRNA_12.1C_unshiu_003065170757589Chorismate synthaseAGI-0732.590RP-0719.092
Mf0079 AAvailable marker O---OOSI067TP Ciclev10028839mscaffold_82472193724724569J C_unshiu_00984:mRNA_8.1C_unshiu_009845567658212Cinnamoyl CoA reductaseAGI-083.409KmG-08NAT-082
Lg2004 ------TP Ciclev10028785mscaffold_825997172602090J C_unshiu_00152:mRNA_53.1C_unshiu_00152347645349890Cinnamyl alcohol dehydrogenaseAGI-0876.045
Af1645 ------TP Ciclev10000427mscaffold_524728052477375J C_unshiu_00127:mRNA_11.1C_unshiu_001275220762775Class I (E and Q) tRNA synthetaseAGI-0990.878
Fb1784 ------TP Ciclev10028959mscaffold_8445469446936J C_unshiu_02466:mRNA_2.1C_unshiu_0246625974055Class I chitinaseRP-0552.311
Lp0133 AtAvailable marker O---OOTP Ciclev10021187mscaffold_33965761339660222J C_unshiu_00037:mRNA_84.1C_unshiu_00037603033605555Class I chitinaseAGI-0548.590KmG-05S60.040NAT-0526.483RP-0565.128
Lp0145 ------J C_unshiu_01491:mRNA_8.1C_unshiu_014914712250568Class I glutamine amidotransferase superfamily proteinKmG-05S40.802JtR-05
Tf0092 ------SI099TP Ciclev10007435mscaffold_132856013291534J C_unshiu_00006:mRNA_60.1C_unshiu_00006496127502071Class III HD-Zip family protein
Gn0043 MDisagree by Marco analysis ---O--SI323TP Ciclev10027790mscaffold_82195312921960709J C_unshiu_02574:mRNA_1.1C_unshiu_025742470Class III homeodomain leucine zipper proteinAGI-0830.721KmG-0827.458
Bf0142 O-----TP Ciclev10024891mscaffold_785088378516759J C_unshiu_00290:mRNA_16.1C_unshiu_00290151884158772Class III homeodomain leucine zipper proteinAGI-025.104
Tf0208 ------SI181TP Ciclev10012022mscaffold_62359351623595492J C_unshiu_00098:mRNA_56.1C_unshiu_00098370300372260COL1 protein
Tf0386 AAvailable marker OOO-OOSI044,SI095TP Ciclev10012022mscaffold_62359351623595492J C_unshiu_00098:mRNA_56.1C_unshiu_00098370300372260COL1 proteinAGI-0441.367
Gn0050 ------TP Ciclev10024602mscaffold_353824905385009J C_unshiu_00014:mRNA_87.1C_unshiu_00014637698638678CRT binding factor 3AGI-0529.035KmG-05S21.884JtR-0519.008
Tf0376 AAvailable marker O---OOSI072TP Ciclev10022680mscaffold_385282928529236J C_unshiu_00154:mRNA_1.1C_unshiu_00154983210761CRT binding factor 3AGI-0541.853
Lp0032 Bno homozygous cultivar with minor allele ------SI286J C_unshiu_00679:mRNA_13.1C_unshiu_00679124222132199CwfJ-like family protein, putative isoform 1
Wy0004 ------J C_unshiu_02819:mRNA_2.1C_unshiu_0281927284118CXE carboxylesteraseAGI-0870.463NAT-08265.434
Bf0184 O-----TP Ciclev10021248mscaffold_32489355124898675J C_unshiu_00286:mRNA_27.1C_unshiu_00286216376220366Cysteine protease ATG4BAGI-0541.306
Vs0003 AAvailable marker ----OOSI077J C_unshiu_00009:mRNA_117.1C_unshiu_00009675718677501Cysteine proteinase RD19aAGI-0935.312KmG-0972.447NAT-0993.467
Bf0233 MDisagree by Marco analysis O-----SI359TP Ciclev10019826mscaffold_365022316504139J C_unshiu_00521:mRNA_1.1C_unshiu_0052124494274Cytochrome P450 76C2AGI-0542.581RP-0527.235
Vs0006 ULess informative for main cultivars ------TP Ciclev10025343mscaffold_71902429519026021J C_unshiu_00468:mRNA_22.1C_unshiu_00468132124133922Cytochrome P450 78A4AGI-0227.491JtR-0250.216NAT-02S3.328
Af1096 ------TP Ciclev10020597mscaffold_34206148842063267J C_unshiu_00778:mRNA_10.1C_unshiu_007788974191509Cytochrome P450 82A4AGI-0551.052
Cp1709 AAvailable marker -----OTP Ciclev10025382mscaffold_714507481452915J C_unshiu_00624:mRNA_14.1C_unshiu_00624137579139378Cytochrome P450 84A1
Mf0076 AAvailable marker ----OOTP Ciclev10012554mscaffold_61170419911706676J C_unshiu_00207:mRNA_15.1C_unshiu_00207132539134984Cytosolic ascorbate peroxidaseAGI-0893.624
Cp2208 AAvailable marker -----OTP Ciclev10021564mscaffold_374201767425027J C_unshiu_00995:mRNA_4.1C_unshiu_009953903143144D-ribulose-5-phosphate-3-epimerase isoform 1
Bf0159 ------SI074TP Ciclev10016059mscaffold_21350226813505597J C_unshiu_01990:mRNA_1.1C_unshiu_019901047113748DCD (Development and cell death) domain proteinRP-06.123.326
Mf0034 OOthers O-----TP Ciclev10031304mscaffold_415594901563887J C_unshiu_00012:mRNA_100.1C_unshiu_00012732963736971DEAD-box ATP-dependent RNA helicase 27RP-0773.631
Cp0454 ------TP Ciclev10030551mscaffold_42320093623206254J C_unshiu_00001:mRNA_32.1C_unshiu_00001214996218740DEAD-box ATP-dependent RNA helicase ISE2, chloroplasticAGI-0773.034
Gn0042 ------TP Ciclev10009742mscaffold_12537017625371445J C_unshiu_00498:mRNA_21.1C_unshiu_00498140388142383DeficiensJtR-086.490
Al0003Al0003.2 ------TP Ciclev10024637mscaffold_34169705241697860J C_unshiu_01778:mRNA_2.1C_unshiu_017782736228139Dehydrin COR15AGI-0549.499
Af1693 ------TP Ciclev10016657mscaffold_23206914932072079J C_unshiu_00027:mRNA_31.2C_unshiu_00027205885208484DERLIN-2.2 isoform 1AGI-0635.794
Tf0124 ------TP Ciclev10007717mscaffold_12745735827462893J C_unshiu_00237:mRNA_37.1C_unshiu_00237259818273281Dethiobiotin synthaseAGI-0134.062
Ov0118 AAvailable marker O---OOSI357TP Ciclev10001621mscaffold_53429485334297359J C_unshiu_03047:mRNA_1.1C_unshiu_0304714183450Dihydrodipicolinate synthaseAGI-0434.838KmG-0936.138JtR-09S72.673NAT-0955.867
Ov0313 OOthers ------TP Ciclev10002372mscaffold_54184498441847835J C_unshiu_00009:mRNA_157.1C_unshiu_0000910134781016014Diphthine synthaseKmG-0979.072
Al0215 OOthers ------TP Ciclev10007304mscaffold_12191872621922966J C_unshiu_00595:mRNA_18.1C_unshiu_005958557588636Disease resistance proteinAGI-0138.255
Bf0409 ------J C_unshiu_00616:mRNA_6.1C_unshiu_006167217179153Disease resistance protein (CC-NBS-LRR class) family proteinAGI-0857.386
Al0225 ------TP Ciclev10001539mscaffold_54109372541097411J C_unshiu_01543:mRNA_6.1C_unshiu_015433410635343DNA glycosylase superfamily proteinKmG-019.277
Fb1134.2 ------TP Ciclev10030474mscaffold_495477079559498J C_unshiu_00140:mRNA_14.1C_unshiu_00140164689176715DNA N-glycosylase/DNA-(Apurinic or apyrimidinic site) lyase, putative isoform 5AGI-0738.546
Tf0342 ------SI151TP Ciclev10019088mscaffold_316494101655963J C_unshiu_00343:mRNA_23.1C_unshiu_00343203038209504DNA repair helicaseAGI-055.510
Cp0540 ------TP Ciclev10020181mscaffold_31042731310435293J C_unshiu_02340:mRNA_1.1C_unshiu_0234020058306DNA repair protein reca, putativeAGI-0542.191
Tf0013 OOthers OOO-OOSI161,SI362TP Ciclev10027769mscaffold_81340861013413938J C_unshiu_01226:mRNA_1.1C_unshiu_012262055925720DNA replication licensing factor MCM2AGI-0856.123
Al0515 Bno homozygous cultivar with minor allele O-----SI178TP Ciclev10030023mscaffold_826731352674232J C_unshiu_00152:mRNA_38.1C_unshiu_00152273851275034DNA-damage-repair/toleration protein DRT100AGI-0873.663JtR-0814.154NAT-08110.596
Cp0675 AAvailable marker O---OOTP Ciclev10030633mscaffold_42029424020301426J C_unshiu_00015:mRNA_33.1C_unshiu_00015302440309360DNA-directed RNA polymeraseAGI-0759.793
Tf0250 AAvailable marker O---OOTP Ciclev10028849mscaffold_826977932701440J C_unshiu_00152:mRNA_36.1C_unshiu_00152252884256413DNA-directed RNA polymerase II subunit RPB3-AAGI-0873.105
Tf0431 AAvailable marker O----OTP Ciclev10028849mscaffold_826977932701440J C_unshiu_00152:mRNA_36.1C_unshiu_00152252884256413DNA-directed RNA polymerase II subunit RPB3-A
Ov0425 Bno homozygous cultivar with minor allele ------SI051,SI291,SI351,SI371TP Ciclev10015385mscaffold_240211674024377J C_unshiu_00992:mRNA_13.1C_unshiu_009927900882132DnaJAGI-0741.317RP-0725.534
Af1487 ------TP Ciclev10028531mscaffold_81815548118157658J C_unshiu_00251:mRNA_22.1C_unshiu_00251205180207288DnaJAGI-0847.330
Bf0213 ------SI097TP Ciclev10000820mscaffold_53769388237699178J C_unshiu_00238:mRNA_2.1C_unshiu_002381447519398DnaJ domain proteinRP-0977.126
Tf0286 DDominant marker O-----TP Ciclev10011556mscaffold_62500158625004619J C_unshiu_01279:mRNA_6.1C_unshiu_012794322246082Dof zinc finger protein DOF5.2AGI-0432.710
Gn0019 ------TP Ciclev10002883mscaffold_52694995126952841J C_unshiu_02041:mRNA_4.1C_unshiu_020411800320672Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit DAD1KmG-0917.972JtR-09S22.316
Al0643 ------TP Ciclev10012685mscaffold_61112665811131076J C_unshiu_02977:mRNA_1.1C_unshiu_0297719502673Dolichyldiphosphatase 1AGI-0856.724
Af1482 ------TP Ciclev10001945mscaffold_53655050736552800J C_unshiu_00657:mRNA_2.2C_unshiu_006572854130831DRE binding transcription factorAGI-0949.255
Cp0114 ------TP Ciclev10027515mscaffold_71544626915449214J C_unshiu_01960:mRNA_1.1C_unshiu_0196014004642DS12 from 2D-PAGE of leaf protein, putativeAGI-0221.337
Gn0049 ------TP Ciclev10028366mscaffold_816044601606311J C_unshiu_00024:mRNA_95.1C_unshiu_00024699386701126DUF1005 family proteinAGI-0877.688JtR-0817.757
Cp0057 ------TP Ciclev10031335mscaffold_42422770324230754J C_unshiu_00001:mRNA_187.1C_unshiu_0000112443531247404DUF1336 family proteinAGI-0779.269
Lp0116 Bno homozygous cultivar with minor allele ------TP Ciclev10028879mscaffold_81939729419398741J C_unshiu_02034:mRNA_3.1C_unshiu_0203475738901DUF3049 family proteinJtR-0818.207NAT-0547.659
Wy0059Wy0059.em ------TP Ciclev10012904mscaffold_685624318564865J C_unshiu_00232:mRNA_33.1C_unshiu_00232292640294683DUF538 family proteinAGI-0891.502
Ov0515 ------TP Ciclev10020337mscaffold_31487842714882285J C_unshiu_01955:mRNA_4.1C_unshiu_019552197026584DUF760 family proteinKmG-0140.558
Cp0431 AAvailable marker O---OOTP Ciclev10015731mscaffold_22708417727089027J C_unshiu_00017:mRNA_35.1C_unshiu_00017248152252850E3 ubiquitin protein ligase RIE1AGI-0660.660
Fb0223 ------SI240J C_unshiu_00303:mRNA_13.1C_unshiu_00303108935110191E3 ubiquitin-protein ligase ATL6RP-0815.967
Bf0171 ------SI381TP Ciclev10006006mscaffold_941163564117315J C_unshiu_00101:mRNA_25.1C_unshiu_00101280469282533Early light-induced protein, chloroplasticAGI-0352.548
Al0416 OOthers ------TP Ciclev10028443mscaffold_82231699922319482J C_unshiu_00639:mRNA_12.1C_unshiu_006399069899467Elongation factor 1-alphaAGI-0823.023JtR-0760.405NAT-08221.126
Ov0018 ULess informative for main cultivars ------TP Ciclev10028443mscaffold_82231699922319482J C_unshiu_00082:mRNA_34.1C_unshiu_00082267163269630Elongation factor 1-alpha
Ov0109 MDisagree by Marco analysis O-----SI172,SI202TP Ciclev10004309mscaffold_93051333330517676J C_unshiu_00003:mRNA_13.1C_unshiu_00003122283126575Elongation factor 2AGI-0371.060JtR-03213.729RP-0371.532
Af1416 ------TP Ciclev10029140mscaffold_837386073741747J C_unshiu_00589:mRNA_10.1C_unshiu_00589131180134227Embryo defective 1273, putative isoform 1AGI-0868.834
Lp0226 O-----SI210TP Ciclev10027999mscaffold_828318322837109J C_unshiu_00152:mRNA_19.1C_unshiu_00152138714144356Embryonic polyadenylate-binding proteinAGI-0873.527
Cp0160 ------TP Ciclev10019883mscaffold_32194055121944032J C_unshiu_00272:mRNA_20.1C_unshiu_00272187755191248EndoglucanaseAGI-0541.267
Tf0213 OOthers O-----TP Ciclev10030571mscaffold_41883954618848948J C_unshiu_00039:mRNA_19.1C_unshiu_00039154778176393Enhancer OF AG-4-like protein, putativeAGI-0748.581
Tf0251 ------SI005J C_unshiu_00039:mRNA_19.1C_unshiu_00039154778176393Enhancer OF AG-4-like protein, putative
Wy0011 OOthers O-----SI091TP Ciclev10032364mscaffold_42441760224419019J C_unshiu_00001:mRNA_226.1C_unshiu_0000114299431431279Enoyl CoA hydratase/isomeraseAGI-0786.288
Mf0052 ------TP Ciclev10005897mscaffold_92805421428056032J C_unshiu_01194:mRNA_11.1C_unshiu_011948357384813Envelope glycoprotein
Vs0005 OOthers O-----SI022,SI075TP Ciclev10016009mscaffold_23321683933219042J C_unshiu_00002:mRNA_211.1C_unshiu_0000215118091513915Epoxide hydrolase 2AGI-0631.521KmG-0259.329JtR-06S50.000NAT-06S50.000
If0219 MDisagree by Marco analysis ------J C_unshiu_00318:mRNA_17.1C_unshiu_00318110550117056EsteraseJtR-0513.922NAT-0528.283
Wy0012 O----OTP Ciclev10004385mscaffold_948885314892972J C_unshiu_00386:mRNA_17.1C_unshiu_00386142436145911Ethylene receptorKmG-03211.250JtR-0314.898NAT-0311.970
Af1414 ------TP Ciclev10004385mscaffold_948885314892972J C_unshiu_00386:mRNA_17.1C_unshiu_00386142436145911Ethylene receptorAGI-0350.895
Bf0158 -O-O--SI376TP Ciclev10021285mscaffold_352532815254755J C_unshiu_00795:mRNA_3.1C_unshiu_007952253423534Ethylene responsive element binding factor, putativeAGI-0529.035NAT-0521.258RP-0520.825
Tf0351 ------SI122TP Ciclev10021622mscaffold_34347209443473220J C_unshiu_00411:mRNA_17.1C_unshiu_00411160316161284Ethylene-responsive transcription factor 1BAGI-0552.655
Tf0027 ------SI046TP Ciclev10026602mscaffold_71391168413912447J C_unshiu_00792:mRNA_11.1C_unshiu_007929233193069Ethylene-responsive transcription factor ERF003AGI-0738.916
Gmom13 ------TP Ciclev10005787mscaffold_91322303413225922J C_unshiu_00620:mRNA_11.2C_unshiu_00620118042120892Ethylene-responsive transcription factor ERF114AGI-0856.724
Tf0201 O-----SI195TP Ciclev10025985mscaffold_71518295015186486J C_unshiu_01526:mRNA_4.1C_unshiu_015261798221291Ethylene-responsive transcription factor WRI1
Gmom23 ------TP Ciclev10025985mscaffold_71518295015186486J C_unshiu_01526:mRNA_4.1C_unshiu_015261798221291Ethylene-responsive transcription factor WRI1KmG-0220.942
Gmom24 ------TP Ciclev10025985mscaffold_71518295015186486J C_unshiu_01526:mRNA_4.1C_unshiu_015261798221291Ethylene-responsive transcription factor WRI1AGI-0219.971
Al0210 MDisagree by Marco analysis ------TP Ciclev10025724mscaffold_767471396750382J C_unshiu_00166:mRNA_28.1C_unshiu_00166205256208771Eukaryotic initiation factor 4A-10KmG-0234.998JtR-0215.126
Al0605 OOthers ------TP Ciclev10022151mscaffold_34143406441437122J C_unshiu_00194:mRNA_5.1C_unshiu_001943856941571Eukaryotic translation initiation factor 4EAGI-0548.750KmG-05S65.384
Tf0226 AAvailable marker O----OTP Ciclev10008836mscaffold_1526813529150J C_unshiu_00129:mRNA_32.1C_unshiu_00129303106311407Exocyst subunit EXO70 family proteinRP-011.100
Wy0030 AAvailable marker O---OOTP Ciclev10001854mscaffold_53622931036230518J C_unshiu_00619:mRNA_10.1C_unshiu_006198721388404EXORDIUM like 2AGI-0953.205KmG-0944.154JtR-09S63.577NAT-0965.585
Al0306 Bno homozygous cultivar with minor allele ------SI029TP Ciclev10021897mscaffold_373374057339222J C_unshiu_00199:mRNA_11.1C_unshiu_001997724079028ExpansinJtR-0523.944
Mf0017 Bno homozygous cultivar with minor allele ------TP Ciclev10021897mscaffold_373374057339222J C_unshiu_00199:mRNA_11.1C_unshiu_001997724079028ExpansinAGI-0544.674
Bf0130 ------SI063,SI188TP Ciclev10004858mscaffold_92698149826984277J C_unshiu_00095:mRNA_24.1C_unshiu_00095228406230902F-box family protein isoform 1AGI-0340.452
Fb0219 ------TP Ciclev10031436mscaffold_42115379121158006J C_unshiu_00010:mRNA_101.1C_unshiu_00010718703722812F-box only protein 6AGI-0346.274
Al0408 O-----TP Ciclev10031487mscaffold_42373775723740513J C_unshiu_00001:mRNA_109.1C_unshiu_00001727392729266F-box/kelch-repeat protein SKIP11AGI-0775.917KmG-0713.235JtR-071.788
Tf0364 AAvailable marker O---OOTP Ciclev10011266mscaffold_62460650124612654J C_unshiu_00135:mRNA_49.1C_unshiu_00135338118344273FACT complex subunit SSRP1AGI-0437.102
Wy0035 ULess informative for main cultivars O-----TP Ciclev10014857mscaffold_23114884931150616J C_unshiu_00292:mRNA_13.1C_unshiu_00292110620112650FAD-binding Berberine family proteinAGI-0636.863
Fb0995 OOthers O-----SI026TP Ciclev10024677mscaffold_711800191202408J C_unshiu_00544:mRNA_10.1C_unshiu_0054497318121662FAT domain-containing proteinAGI-0274.555KmG-0282.954JtR-0210.215
Cp0065 O-----TP Ciclev10002793mscaffold_584351238435971J C_unshiu_01044:mRNA_2.1C_unshiu_0104471177963FerredoxinAGI-0986.996
Cp0703 ------TP Ciclev10029499mscaffold_81954654119549348J C_unshiu_01460:mRNA_6.1C_unshiu_014603568336517FerredoxinAGI-0843.089
Al0018 ------TP Ciclev10029499mscaffold_81954654119549348J C_unshiu_01460:mRNA_6.1C_unshiu_014603568336517FerredoxinRP-0823.447
Bf0189 ------J C_unshiu_00008:mRNA_66.1C_unshiu_00008372226374586FerritinRP-0415.774
Cp0741 AAvailable marker O---OOTP Ciclev10008230mscaffold_137468643749903J C_unshiu_00055:mRNA_22.1C_unshiu_00055168281172005FerrochelataseAGI-0175.964
Tf0058 ------SI257TP Ciclev10009065mscaffold_12088510220889283J C_unshiu_00395:mRNA_8.2C_unshiu_003955097854866Fertilization-independent endosperm proteinAGI-0146.623
Af1405 ------TP Ciclev10032481mscaffold_42450383824505365J C_unshiu_00001:mRNA_238.1C_unshiu_0000115138111515209FH interacting protein 1AGI-0783.026
Gn0005 MDisagree by Marco analysis ------TP Ciclev10015934mscaffold_23569324935696515J C_unshiu_00337:mRNA_13.1C_unshiu_003376888371725FibrillinAGI-0616.857KmG-0663.840NAT-06S59.976
Af1223 ------TP Ciclev10009839mscaffold_12711141227114276J C_unshiu_00347:mRNA_8.1C_unshiu_003476655579401Flavin-binding kelch domain F box proteinAGI-0997.668
Af1207 ------TP Ciclev10025335mscaffold_71560506515607345J C_unshiu_00628:mRNA_20.1C_unshiu_00628144683146646Flavonoid 3'-monooxygenaseAGI-0221.344
Bf0147 ------SI165TP Ciclev10014858mscaffold_259753675977280J C_unshiu_00260:mRNA_18.1C_unshiu_00260124629126502Flavonoid 3'-monooxygenaseRP-06.147.841
Gn0004 ------TP Ciclev10026028mscaffold_760115236014015J C_unshiu_00696:mRNA_14.1C_unshiu_00696122646125456Flavonol synthaseAGI-0249.699KmG-0238.471JtR-0215.126
Wy0034 ------SI367TP Ciclev10026310mscaffold_722996382302863J C_unshiu_00025:mRNA_32.1C_unshiu_00025269762270443Flavoprotein wrbA
Tf0344 AAvailable marker O---OOTP Ciclev10016433mscaffold_23462423634631123J C_unshiu_00002:mRNA_17.1C_unshiu_00002124392131264Floral homeotic protein AGAMOUSAGI-0624.216
Tf0145 ------SI092TP Ciclev10022479mscaffold_384864918488997J C_unshiu_00154:mRNA_7.1C_unshiu_001544913160112Floral homeotic protein APETALA 1
Tf0280 ------SI158,SI200TP Ciclev10025566mscaffold_734299643433239J C_unshiu_00301:mRNA_24.3C_unshiu_00301159835163045Floral homeotic protein APETALA 2AGI-0554.268
Al0514 ULess informative for main cultivars ------TP Ciclev10012145mscaffold_62103591021038368J C_unshiu_00052:mRNA_38.1C_unshiu_00052265461267883Fructose-bisphosphate aldolase, cytoplasmic isozymeKmG-0432.217
If0210 ------SI042TP Ciclev10012145mscaffold_62103591021038368J C_unshiu_00052:mRNA_38.1C_unshiu_00052265461267883Fructose-bisphosphate aldolase, cytoplasmic isozymeAGI-0273.759
Al0635 AAvailable marker ----OOTP Ciclev10015354mscaffold_22643554026438838J C_unshiu_00197:mRNA_27.1C_unshiu_00197251131253300GAGA-binding transcriptional activatorAGI-0669.195KmG-0615.268JtR-06S1.903NAT-06S7.869
Cp2262 AAvailable marker -----OTP Ciclev10026121mscaffold_718709331874304J C_unshiu_00289:mRNA_20.1C_unshiu_00289113542116894Galactose mutarotase-like superfamily protein
Tf0264 AAvailable marker O---OOTP Ciclev10015873mscaffold_2248256250675J C_unshiu_00109:mRNA_29.1C_unshiu_00109175776179005GANAGI-06103.728
Tf0454 AAvailable marker O---OOTP Ciclev10027306mscaffold_71610872316113463J C_unshiu_00371:mRNA_10.1C_unshiu_00371121418127245GATA transcription factorAGI-0221.099
Tf0106 ------TP Ciclev10006161mscaffold_911280461129318J C_unshiu_00007:mRNA_6.1C_unshiu_000074959950702GATA transcription factor 15AGI-037.674
Fb0103 OOthers O-----SI155TP Ciclev10008255mscaffold_12275871222761740J C_unshiu_00103:mRNA_27.1C_unshiu_00103160138163082GDP-L-galactose phosphorylaseAGI-0130.703JtR-01S6.418
Wy0041 ------TP Ciclev10025903mscaffold_712958391297378J C_unshiu_00218:mRNA_18.1C_unshiu_002189307494183GDP-mannose 4,6 dehydratase 2AGI-0275.406
Wy0045Wy0045.k ------TP Ciclev10028268mscaffold_895646989566326J C_unshiu_02764:mRNA_1.1C_unshiu_0276415292654Geraniol 10-hydroxylase-like proteinAGI-0856.724
Af1111 ------TP Ciclev10015086mscaffold_22302119323023457J C_unshiu_00172:mRNA_31.1C_unshiu_00172270783273047Glucan endo-1,3-beta-glucosidase 13AGI-0683.445
If0005 OOthers ------TP Ciclev10032438mscaffold_42062946320633356J C_unshiu_00015:mRNA_81.1C_unshiu_00015667011671011Glucosamine/galactosamine-6-phosphate isomerase family proteinJtR-0725.458NAT-0715.764
Cp0052 OOthers O-----J C_unshiu_01597:mRNA_11.1C_unshiu_015972947142354Glucose-6-phosphate dehydrogenase 4AGI-0896.035
Bf0200 OOthers ------SI335TP Ciclev10014367mscaffold_22902243329030724J C_unshiu_00022:mRNA_44.1C_unshiu_00022308324316293Glutamine-tRNA ligase / glutaminyl-tRNA synthetas, putative isoform 1
Af1312 ------TP Ciclev10014367mscaffold_22902243329030537J C_unshiu_00022:mRNA_44.1C_unshiu_00022308324316293Glutamine-tRNA ligase / glutaminyl-tRNA synthetas, putative isoform 1AGI-0637.883
Af1003 O-----TP Ciclev10001093mscaffold_51560585215610028J C_unshiu_00533:mRNA_20.1C_unshiu_00533131430141111Glutamyl-tRNA(Gln) amidotransferase subunit A, chloroplastic/mitochondrialAGI-0222.436
Af1149 ------TP Ciclev10025360mscaffold_71298595412989228J C_unshiu_02261:mRNA_2.1C_unshiu_022611915621966Glycerol kinaseAGI-0521.630
Af1087 O-----TP Ciclev10019689mscaffold_32479635124800588J C_unshiu_00286:mRNA_17.1C_unshiu_00286132648135466Glycine hydroxymethyltransferaseAGI-0541.306
Af1586 ------TP Ciclev10005733mscaffold_92311950223122347J C_unshiu_00148:mRNA_17.1C_unshiu_00148145165147922Glycoprotein family proteinAGI-0363.545
Vt0029 ------TP Ciclev10031975mscaffold_424513452454325J C_unshiu_00979:mRNA_17.1C_unshiu_009797901681937GroES-like zinc-binding alcohol dehydrogenase family proteinAGI-0713.238
Bf0036 AAvailable marker OO-OOOTP Ciclev10008751mscaffold_12284094722844111J C_unshiu_00103:mRNA_45.1C_unshiu_00103244231250643GrpE protein homologAGI-0129.144RP-0146.445
Bf0020 ------TP Ciclev10005107mscaffold_92518520025188839J C_unshiu_00119:mRNA_25.1C_unshiu_00119238437248656Guanylate kinaseAGI-0347.887RP-0337.189
Tf0071 ------SI084,SI146TP Ciclev10022102mscaffold_32661074726612959J C_unshiu_00167:mRNA_6.1C_unshiu_001675730062494HAUS augmin-like complex subunitAGI-0346.274
Fb0207 ------TP Ciclev10006449mscaffold_937711623771725J C_unshiu_00254:mRNA_35.1C_unshiu_00254237120239518Heat shock 22 kDa proteinRP-0321.444
Tf0263 ------SI013TP Ciclev10008768mscaffold_163580306359568J C_unshiu_00075:mRNA_22.1C_unshiu_00075227733229211Heat shock transcription factor A7a1
Tf0068 ------SI106TP Ciclev10020724mscaffold_34414130544144453J C_unshiu_00217:mRNA_25.1C_unshiu_00217201916205032Heat shock transcription factor A7a1AGI-0554.268
Tf0072 ------TP Ciclev10005403mscaffold_92875727428759075J C_unshiu_00045:mRNA_48.1C_unshiu_00045372168373811Heat stress transcription factor B-4AGI-0335.962
Tf0079 MDisagree by Marco analysis O--O--SI270,SI294TP Ciclev10021287mscaffold_370470247049430J C_unshiu_00425:mRNA_7.1C_unshiu_004253560838027Heat stress transcription factor B-4AGI-0545.092
Af1498 ------TP Ciclev10006723mscaffold_967663496768025J C_unshiu_00307:mRNA_26.2C_unshiu_00307212314218407Heterogeneous nuclear ribonucleoprotein 1AGI-0346.274
Lp0024 HDisagree on Clementine haploid genotype O-----SI010,SI302TP Ciclev10026549mscaffold_713098841311067J C_unshiu_00218:mRNA_20.1C_unshiu_0021898317107740Heterogeneous nuclear ribonucleoprotein QAGI-0274.555RP-02.217.330
Lp0122 MDisagree by Marco analysis O-----SI170TP Ciclev10026549mscaffold_713098841311067J C_unshiu_00218:mRNA_20.1C_unshiu_0021898317107740Heterogeneous nuclear ribonucleoprotein QNAT-02S69.942RP-02.217.330
Vt0015 ------TP Ciclev10025952mscaffold_724414522443391J C_unshiu_00025:mRNA_49.1C_unshiu_00025381829383760HexosyltransferaseAGI-0270.082KmG-0267.054JtR-0221.082
Al0525 OOthers O-----TP Ciclev10026706mscaffold_7252320254023J C_unshiu_00312:mRNA_20.2C_unshiu_00312114652116351High mobility group (HMG)-box proteinAGI-0138.939KmG-0141.081
Tf0343 AtAvailable marker O---OOTP Ciclev10016587mscaffold_22920468029206501J C_unshiu_00022:mRNA_67.1C_unshiu_00022489282490950High mobility group B protein 7AGI-0644.393
Mf0041 AAvailable marker ----OOTP Ciclev10022012mscaffold_34507682145080633J C_unshiu_00069:mRNA_16.1C_unshiu_00069123654127483Histidine-containing phosphotransfer protein 1AGI-0556.534KmG-05S73.977JtR-0538.393
Af1345 ------TP Ciclev10013023mscaffold_61308231313084012J C_unshiu_01022:mRNA_2.1C_unshiu_01022856610161Histone H2AAGI-0893.624
Tf0232 ------SI258,SI261TP Ciclev10001105mscaffold_53706620837070717J C_unshiu_00773:mRNA_3.1C_unshiu_007733135135269Histone-lysine N-methyltransferase ASHR1
Tf0326 AAvailable marker OO-OOOSI085TP Ciclev10024695mscaffold_725015202509737J C_unshiu_02417:mRNA_1.1C_unshiu_02417369211684Histone-lysine N-methyltransferase SUVR5AGI-0269.928
Fb1916 ------SI336TP Ciclev10016275mscaffold_21204396912046230J C_unshiu_00026:mRNA_12.1C_unshiu_00026110679112686Histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH4RP-06.124.027
Tf0020 ------SI154TP Ciclev10026414mscaffold_722894552291216J C_unshiu_00025:mRNA_31.1C_unshiu_00025258446260200Homeobox leucine zipper proteinAGI-0271.294
Tf0375 ------TP Ciclev10022365mscaffold_31303465413036082J C_unshiu_00020:mRNA_62.1C_unshiu_00020527751528816Homeobox leucine zipper proteinAGI-0540.558
Tf0045 ------SI303,SI321TP Ciclev10032837mscaffold_42349602023497466J C_unshiu_00001:mRNA_74.1C_unshiu_00001490607491890Homeobox transcription factorAGI-0774.573
Tf0265 ------SI197TP Ciclev10019232mscaffold_34931810649324231J C_unshiu_00018:mRNA_126.1C_unshiu_00018839780845037Homeobox-leucine zipper protein ANTHOCYANINLESS 2
Tf0363 ------SI002,SI096TP Ciclev10019714mscaffold_34931810649324231J C_unshiu_00018:mRNA_126.1C_unshiu_00018839780845037Homeobox-leucine zipper protein ANTHOCYANINLESS 2
Wy0018 AAvailable marker ----OOTP Ciclev10021374mscaffold_353188745321054J C_unshiu_00442:mRNA_14.1C_unshiu_00442123398125451Homeobox-leucine zipper protein HAT3AGI-0529.033KmG-05S20.128JtR-0519.008
Tf0301 ------SI182TP Ciclev10021374mscaffold_353188745321054J C_unshiu_00442:mRNA_14.1C_unshiu_00442123398125451Homeobox-leucine zipper protein HAT3
Gn0041 AAvailable marker -----OJ C_unshiu_00123:mRNA_16.1C_unshiu_00123116817119061Homeobox-leucine zipper protein HAT5KmG-05S9.772JtR-0528.396
Tf0198 AAvailable marker O----OTP Ciclev10032275mscaffold_42369576623697703J C_unshiu_00001:mRNA_105.2C_unshiu_00001685451687250Homeobox-leucine zipper protein HAT7
Gn0048 AAvailable marker -O--OOSI289TP Ciclev10032275mscaffold_42369576623697703J C_unshiu_00001:mRNA_105.2C_unshiu_00001685451687250Homeobox-leucine zipper protein HAT7AGI-0774.225KmG-077.964JtR-074.200
Tf0203 ------SI121TP Ciclev10014039mscaffold_21045959310472483J C_unshiu_00403:mRNA_13.1C_unshiu_0040388988102135Homeodomain transcriptional regulator
Tf0075 ------SI059,SI248TP Ciclev10010972mscaffold_61914230719156510J C_unshiu_00089:mRNA_11.1C_unshiu_00089108874122025Homoserine kinaseAGI-0466.455
Cp0603 MDisagree by Marco analysis O-----TP Ciclev10028998mscaffold_823496552354496J C_unshiu_00363:mRNA_34.1C_unshiu_00363217631222409Hop-interacting protein THI043AGI-0875.684
Ov0404 AAvailable marker -----OTP Ciclev10002415mscaffold_52976809129769281J C_unshiu_00731:mRNA_6.3C_unshiu_007312659828767Hydroxycinnamoyl-CoA shikimate/quinate hydroxycinnamoyl transferaseKmG-0929.016JtR-09S31.495RP-0929.347
Wy0026 HDisagree on Clementine haploid genotype ------TP Ciclev10010857mscaffold_12832134228323314J C_unshiu_02224:mRNA_5.1C_unshiu_022243017631684Hydroxycinnamoyl-CoA shikimate/quinate hydroxycinnamoyl transferaseAGI-0135.518
Af1509 ------TP Ciclev10032314mscaffold_42356425123568956J C_unshiu_00001:mRNA_83.3C_unshiu_00001555659560336Hypersensitive-induced response protein 1AGI-0773.796
Tf0166 ------SI156TP Ciclev10000524mscaffold_51968257919686163J C_unshiu_00050:mRNA_13.1C_unshiu_00050140837153470Hypothetical proteinAGI-09101.351
Fb0357 O-----SI384TP Ciclev10001633mscaffold_54055022240554434J C_unshiu_00889:mRNA_6.1C_unshiu_008894417551825Hypothetical proteinAGI-0939.104
Bf0183 O-----SI308TP Ciclev10005208mscaffold_952544165256826J C_unshiu_01106:mRNA_9.1C_unshiu_011067727579234Hypothetical protein
Fb0365 O-----SI036,SI320TP Ciclev10026391mscaffold_72087246220874659J C_unshiu_00098:mRNA_41.1C_unshiu_00098264947272086Hypothetical proteinAGI-0231.596KmG-02JtR-02-4.953
Af0004 O-----TP Ciclev10025125mscaffold_784474148453714J C_unshiu_00290:mRNA_10.1C_unshiu_0029083615110154Hypothetical proteinAGI-022.847
Tf0173 O-----TP Ciclev10015413mscaffold_22609734326099320J C_unshiu_00259:mRNA_35.1C_unshiu_00259219790227265Hypothetical proteinRP-06.128.110
Tf0176 ------TP Ciclev10008476mscaffold_1385469388179J C_unshiu_00003:mRNA_163.1C_unshiu_0000312269241232429Hypothetical proteinRP-01
Tf0177 ------SI133TP Ciclev10008476mscaffold_1385469388179J C_unshiu_00003:mRNA_163.1C_unshiu_0000312269241232429Hypothetical protein
Tf0455 OOthers O-----TP Ciclev10017004mscaffold_293386519341271J C_unshiu_00067:mRNA_10.1C_unshiu_000677469688429Hypothetical proteinAGI-06114.172
Af0015 ------TP Ciclev10019449mscaffold_34402177944027536J C_unshiu_00217:mRNA_10.1C_unshiu_002178639391294Hypothetical proteinAGI-0554.268
Vs0002 MDisagree by Marco analysis ------SI103,SI115TP Ciclev10000046mscaffold_54118418041190033J C_unshiu_00127:mRNA_46.1C_unshiu_00127341430344325Hypothetical proteinAGI-0936.685KmG-0973.930JtR-0768.221
Af0016 ------TP Ciclev10022861mscaffold_32507416325075916J C_unshiu_00117:mRNA_7.1C_unshiu_001173894940765Hypothetical proteinAGI-0541.306
Bf0221 ------TP Ciclev10005970mscaffold_92419518024198282J C_unshiu_00132:mRNA_22.1C_unshiu_00132211597223530Hypothetical proteinAGI-0347.887RP-0337.193
Al0240 AAvailable marker ----OOTP Ciclev10028497mscaffold_880334658038415J C_unshiu_00682:mRNA_9.1C_unshiu_006825978663447Hypothetical proteinAGI-0853.867
Ov0324 AAvailable marker -----OTP Ciclev10030198mscaffold_82257584522578398J C_unshiu_01619:mRNA_6.1C_unshiu_016191513924519Hypothetical proteinKmG-0823.615
Tf0196 ------TP Ciclev10025815mscaffold_777965917799786J C_unshiu_01633:mRNA_1.1C_unshiu_01633944211959Hypothetical proteinAGI-024.033
Af1011 O-----TP Ciclev10013781mscaffold_62530682925315243J C_unshiu_00009:mRNA_53.1C_unshiu_00009289462299397Hypothetical proteinRP-0460.491
Fb2130 ------SI069,SI117TP Ciclev10030030mscaffold_82434112924344795J C_unshiu_00021:mRNA_68.1C_unshiu_00021452003461315Hypothetical proteinAGI-0811.809KmG-0811.813
Lp0105 Bno homozygous cultivar with minor allele O-----SI113,SI163,SI254TP Ciclev10026412mscaffold_7815904817239J C_unshiu_00353:mRNA_13.1C_unshiu_003539203393437Hypothetical proteinAGI-0275.939
Vt0003 ------TP Ciclev10027667mscaffold_881536608174407J C_unshiu_00616:mRNA_3.1C_unshiu_006161080818470Hypothetical proteinAGI-0856.724
Bf0413 ------J C_unshiu_00293:mRNA_16.1C_unshiu_00293231743233897Hypothetical proteinAGI-0986.996
Lp0119 AAvailable marker ----OOSI276TP Ciclev10028631mscaffold_82431572024317671J C_unshiu_00021:mRNA_65.1C_unshiu_00021426040431920Hypothetical proteinAGI-088.544
Al0309 AAvailable marker O----OTP Ciclev10022019mscaffold_34490005944900865J C_unshiu_00069:mRNA_47.1C_unshiu_00069301188317479Hypothetical proteinKmG-05S73.967JtR-0538.749RP-0586.332
Ov0423 T3 or more alleleic model O-----TP Ciclev10023016mscaffold_34295436242955051J C_unshiu_00152:mRNA_28.1C_unshiu_00152189707190632Hypothetical proteinAGI-0555.522
Ov0427 ------TP Ciclev10009427mscaffold_121566792158871J C_unshiu_00553:mRNA_14.1C_unshiu_00553110847134434Hypothetical proteinKmG-05S36.268
Bf1204 ------SI364TP Ciclev10013297mscaffold_61375067113752605J C_unshiu_00155:mRNA_3.1C_unshiu_001551760819347Hypothetical protein
Bf1207 ------TP Ciclev10010835mscaffold_12291269522913798J C_unshiu_00103:mRNA_59.1C_unshiu_00103319187320041Hypothetical proteinAGI-01
Gn0002 ------TP Ciclev10032697mscaffold_433359453338632J C_unshiu_00465:mRNA_12.1C_unshiu_00465149021153095Hypothetical proteinAGI-0790.233JtR-0764.361
Ov0502 ------J C_unshiu_01254:mRNA_7.1C_unshiu_012546434965139Hypothetical proteinKmG-0462.093JtR-043.789RP-09
Vt0028 ------TP Ciclev10032489mscaffold_41894749818950949J C_unshiu_00039:mRNA_34.1C_unshiu_00039255025269908Hypothetical proteinAGI-0751.998KmG-0744.183JtR-0739.088
Af1321 ------TP Ciclev10009751mscaffold_11637116816375666J C_unshiu_00108:mRNA_25.1C_unshiu_00108320409344557Hypothetical proteinAGI-0634.500
Al0324 MDisagree by Marco analysis ------TP Ciclev10029315mscaffold_82042428720425903J C_unshiu_00320:mRNA_1.2C_unshiu_003201275814314Hypothetical proteinAGI-0841.127NAT-08231.019RP-0817.081
Af1052 O-----TP Ciclev10004444mscaffold_91280815412820311J C_unshiu_00508:mRNA_9.1C_unshiu_005084038558179Hypothetical proteinAGI-0856.724
Cp1523 AAvailable marker ----OOTP Ciclev10005519mscaffold_913567581359310J C_unshiu_01431:mRNA_7.1C_unshiu_014313151837086Hypothetical proteinAGI-0312.606
Ov0513 OOthers O-----TP Ciclev10011622mscaffold_62534941725351949J C_unshiu_00009:mRNA_59.1C_unshiu_00009325807333424Hypothetical proteinAGI-0438.903KmG-045.110RP-0460.491
Al0331 AAvailable marker -----OTP Ciclev10033190mscaffold_484066328407188J C_unshiu_00111:mRNA_9.1C_unshiu_001118353184087Hypothetical proteinKmG-099.593JtR-0752.611RP-0719.079
Tf0245 ------SI021TP Ciclev10008628mscaffold_11829859918300295J C_unshiu_00548:mRNA_21.1C_unshiu_00548168151169460Hypothetical protein
Al0401 OOthers O-----TP Ciclev10025346mscaffold_71318056713191638J C_unshiu_01698:mRNA_6.1C_unshiu_016983933640206Hypothetical proteinKmG-0226.204JtR-02-6.043NAT-02S22.960
Tf0254 Bno homozygous cultivar with minor allele O-----TP Ciclev10010885mscaffold_62391687623939827J C_unshiu_00253:mRNA_3.1C_unshiu_002531464720586Hypothetical proteinAGI-0438.226
Cp0047 HDisagree on Clementine haploid genotype ------TP Ciclev10021599mscaffold_34091814840922656J C_unshiu_00735:mRNA_16.1C_unshiu_00735120088124350Hypothetical proteinAGI-0548.590
Lp0220 O-----TP Ciclev10000749mscaffold_53922121039227401J C_unshiu_00495:mRNA_21.1C_unshiu_00495125230136174Hypothetical proteinAGI-0714.968
Af1084 ------TP Ciclev10008467mscaffold_12571686225720071J C_unshiu_00066:mRNA_57.1C_unshiu_00066369928382143Hypothetical proteinAGI-0124.643
Al0419 OOthers O-----TP Ciclev10005894mscaffold_924528532455181J C_unshiu_00394:mRNA_25.1C_unshiu_00394150531152208Hypothetical proteinAGI-0317.378KmG-099.593JtR-09S7.976
Tf0003.2 OOthers O-----TP Ciclev10002471mscaffold_53780887837811097J C_unshiu_00238:mRNA_14.1C_unshiu_00238116142129209Hypothetical proteinAGI-0944.054
Af1362 ------TP Ciclev10027931mscaffold_828889922895645J C_unshiu_00152:mRNA_9.1C_unshiu_001527256486513Hypothetical proteinAGI-0880.366
Gn0058 ------TP Ciclev10029531mscaffold_81129775411299510J C_unshiu_00424:mRNA_23.1C_unshiu_00424213541217268Hypothetical proteinAGI-0859.107
Tf0011.2 OOthers O-----TP Ciclev10018614mscaffold_31107879811089090J C_unshiu_02207:mRNA_3.1C_unshiu_02207980219021Hypothetical proteinAGI-0542.191
Wy0039 AAvailable marker ----OOTP Ciclev10028965mscaffold_81882426218825514J C_unshiu_00459:mRNA_4.1C_unshiu_004593447534918Hypothetical proteinAGI-0845.276JtR-0816.276
Wy0040 AAvailable marker O----OTP Ciclev10011622mscaffold_62534941725351949J C_unshiu_00001:mRNA_217.1C_unshiu_0000113783781380557Hypothetical proteinKmG-0412.855
Wy0044.3 ------TP Ciclev10020328mscaffold_34962166549623875J C_unshiu_00126:mRNA_45.1C_unshiu_00126300225314275Hypothetical proteinRP-0549.102
Al0524 AAvailable marker OO--OOSI043,SI341TP Ciclev10031723mscaffold_4115362118025J C_unshiu_02038:mRNA_4.1C_unshiu_020383425638775Hypothetical proteinAGI-075.972JtR-0776.060RP-0774.381
Al0602 AAvailable marker -----OTP Ciclev10017248mscaffold_22714114827141869J C_unshiu_00017:mRNA_42.1C_unshiu_00017304994305523Hypothetical proteinKmG-0618.450JtR-06S3.805
Af1398 ------TP Ciclev10030393mscaffold_878993767902959J C_unshiu_00887:mRNA_6.1C_unshiu_008874912057547Hypothetical proteinAGI-0857.551
Mf0033 AAvailable marker ----OOTP Ciclev10010044mscaffold_162276176228389J C_unshiu_00075:mRNA_11.1C_unshiu_00075123779124531Hypothetical proteinAGI-0162.570KmG-0146.353JtR-01S106.811NAT-01S77.905
Tf0042.2 AAvailable marker O----OTP Ciclev10016820mscaffold_293386519341271J C_unshiu_00067:mRNA_10.1C_unshiu_000677469688429Hypothetical protein
Cp0278 ------TP Ciclev10022561mscaffold_32475079424752907J C_unshiu_00286:mRNA_8.1C_unshiu_002867306881236Hypothetical proteinAGI-04122.142
Tf0054 O-----SI238TP Ciclev10000100mscaffold_54310899843114214J C_unshiu_01422:mRNA_2.1C_unshiu_014221515033598Hypothetical proteinAGI-0921.045
Al0620 OOthers ------TP Ciclev10025816mscaffold_777965917799786J C_unshiu_01633:mRNA_1.1C_unshiu_01633944211959Hypothetical proteinKmG-0236.964JtR-0217.013
Cp0321 AAvailable marker -----OTP Ciclev10026722mscaffold_788986268899984J C_unshiu_00221:mRNA_33.1C_unshiu_00221211111214358Hypothetical protein
Al0621 Bno homozygous cultivar with minor allele O-----TP Ciclev10025875mscaffold_745755034577125J C_unshiu_00656:mRNA_8.1C_unshiu_006563294034329Hypothetical proteinAGI-0260.566KmG-0247.196JtR-0228.472
Af1685 ------TP Ciclev10023782mscaffold_34008698540089114J C_unshiu_00335:mRNA_9.1C_unshiu_003357616477436Hypothetical proteinAGI-0556.481
Mf0055 DDominant marker ----OOTP Ciclev10022212mscaffold_34555134545552620J C_unshiu_01674:mRNA_4.1C_unshiu_016741777728549Hypothetical proteinAGI-0557.948KmG-05S75.866JtR-0538.749NAT-0539.573
Af1690 ------TP Ciclev10032651mscaffold_42392375723925178J C_unshiu_00001:mRNA_137.1C_unshiu_00001920379924128Hypothetical proteinAGI-0777.752
Mf0060 ------J C_unshiu_00715:mRNA_6.1C_unshiu_007152960130242Hypothetical proteinJtR-0756.497
If0205 Bno homozygous cultivar with minor allele ------SI256J C_unshiu_00046:mRNA_66.1C_unshiu_00046551244556744Hypothetical proteinAGI-0486.280KmG-0452.960
If0207 HDisagree on Clementine haploid genotype ------J C_unshiu_01172:mRNA_2.1C_unshiu_011722841328712Hypothetical proteinAGI-0745.716
Mf0070 MDisagree by Marco analysis O-----SI017TP Ciclev10017346mscaffold_230673373069249J C_unshiu_00246:mRNA_8.1C_unshiu_002466825169988Hypothetical proteinAGI-0736.616JtR-0752.611RP-0719.079
If0216 OOthers O-----SI174TP Ciclev10015257mscaffold_21287695212881843J C_unshiu_01838:mRNA_2.1C_unshiu_018382359431186Hypothetical proteinAGI-0974.076KmG-0126.420JtR-01S66.382RP-0929.224
Mf0072 AAvailable marker ----OOTP Ciclev10013297mscaffold_61375067113752605J C_unshiu_00155:mRNA_3.1C_unshiu_001551760819347Hypothetical proteinAGI-0491.104KmG-0458.483RP-048.126
Mf0073 HDisagree on Clementine haploid genotype ------J C_unshiu_00069:mRNA_5.1C_unshiu_000692558928375Hypothetical proteinJtR-0538.749NAT-0544.567
If0220 AAvailable marker -----OTP Ciclev10001084mscaffold_53948064739484776J C_unshiu_00457:mRNA_15.1C_unshiu_004579948899913Hypothetical protein
Cp2263 AAvailable marker ----OOTP Ciclev10026034mscaffold_725863842588513J C_unshiu_00025:mRNA_69.1C_unshiu_00025530588532071Hypothetical proteinAGI-0270.082
Af1453 ------TP Ciclev10023068mscaffold_346632114664667J C_unshiu_01589:mRNA_7.1C_unshiu_015892906337936Hypothetical proteinAGI-0527.956
Ks9013 ------TP Ciclev10032489mscaffold_41894749818950949J C_unshiu_00039:mRNA_34.1C_unshiu_00039255025269908Hypothetical proteinKmG-0745.284JtR-0739.119
Tf0370 ------TP Ciclev10019820mscaffold_34712109347124518J C_unshiu_00023:mRNA_20.1C_unshiu_00023123134131389Hypothetical proteinAGI-0569.117
Tf0371 ------TP Ciclev10002081mscaffold_52037755220384333J C_unshiu_00913:mRNA_4.1C_unshiu_009133745043326Hypothetical proteinAGI-09102.280
Mf0096 OOthers ------SI249,SI333TP Ciclev10018252mscaffold_22777486327778271J C_unshiu_00745:mRNA_6.1C_unshiu_007454815062370Hypothetical proteinAGI-0660.007KmG-0622.141JtR-06S5.708NAT-06S10.082
Af1462 ------TP Ciclev10012884mscaffold_62427403124276658J C_unshiu_00133:mRNA_50.1C_unshiu_00133274230284897Hypothetical proteinAGI-0437.527
Cp0634 ------TP Ciclev10031740mscaffold_41566046315665838J C_unshiu_00824:mRNA_8.1C_unshiu_0082496745119992Hypothetical proteinAGI-0732.589
Al0001 ------J C_unshiu_00424:mRNA_23.1C_unshiu_00424213541217268Hypothetical proteinAGI-0362.228JtR-03117.616
Bf0101 ------TP Ciclev10003680mscaffold_53291782632924241J C_unshiu_00229:mRNA_13.1C_unshiu_002295743862744Hypothetical proteinNAT-0950.353
Tf0119 AAvailable marker ----OOTP Ciclev10014416mscaffold_23556423835570619J C_unshiu_01497:mRNA_5.1C_unshiu_014972029733375Hypothetical proteinAGI-0619.002
Fb0133 ------J C_unshiu_00195:mRNA_19.1C_unshiu_00195140861146843Hypothetical proteinAGI-0239.589KmG-021.175JtR-021.082
Tf0122 ------TP Ciclev10020009mscaffold_32462062324627357J C_unshiu_02869:mRNA_1.1C_unshiu_02869188510204Hypothetical proteinAGI-0541.306
Fb0144 AAvailable marker ----OOSI191TP Ciclev10019665mscaffold_35086181350866146J C_unshiu_00206:mRNA_42.1C_unshiu_00206283219294491Hypothetical proteinAGI-05107.806
Fb0180 ------SI209TP Ciclev10005370mscaffold_92773448227736035J C_unshiu_00252:mRNA_1.1C_unshiu_002521210913626Hypothetical proteinRP-0356.919
Bf0128 O-----TP Ciclev10025298mscaffold_733232693331038J C_unshiu_00051:mRNA_2.2C_unshiu_000512587240163Hypothetical proteinAGI-0270.082NAT-02S77.157RP-02.29.835
Fb0237 ------TP Ciclev10007227mscaffold_12348720023497316J C_unshiu_00338:mRNA_20.1C_unshiu_00338134033144369Hypothetical proteinAGI-0128.325
Fb0246 ------TP Ciclev10029680mscaffold_824034922406922J C_unshiu_00363:mRNA_27.1C_unshiu_00363170901174318Hypothetical proteinAGI-0880.078
Cp0933 OOthers ------TP Ciclev10019734mscaffold_34982190649825730J C_unshiu_00014:mRNA_26.1C_unshiu_00014159299162719Hypothetical proteinAGI-0347.283
Ov0116 ------TP Ciclev10032931mscaffold_431938753196468J C_unshiu_00342:mRNA_22.1C_unshiu_00342154980164222Hypothetical proteinKmG-0253.208JtR-0227.051RP-02.25.192
Ov0117 AAvailable marker O---OOSI040TP Ciclev10010926mscaffold_61910513919113780J C_unshiu_00089:mRNA_17.1C_unshiu_00089153791161685Hypothetical proteinAGI-0466.455RP-0428.160
Fb0293 ------SI198,SI374J C_unshiu_00152:mRNA_37.1C_unshiu_00152259580269499Hypothetical proteinAGI-0873.663
Cp0974 ------TP Ciclev10011578mscaffold_680294888035109J C_unshiu_00711:mRNA_6.1C_unshiu_00711128510138133Hypothetical proteinAGI-04107.018
Fb0296 ------TP Ciclev10014378mscaffold_22268912422695586J C_unshiu_01495:mRNA_8.1C_unshiu_014956033662557Hypothetical proteinRP-06.110.382
Al0209 HDisagree on Clementine haploid genotype ------TP Ciclev10008628mscaffold_11829859918300295J C_unshiu_00548:mRNA_21.1C_unshiu_00548168151169460Hypothetical proteinKmG-0137.230JtR-01S88.382
Cp0719 ------TP Ciclev10028417mscaffold_82325704323262019J C_unshiu_02393:mRNA_2.1C_unshiu_023931863723537Inner membrane protein ALBINO3AGI-0812.793
Ks9001 ------TP Ciclev10008207mscaffold_12454810924552107J C_unshiu_00047:mRNA_72.1C_unshiu_00047475125488565Inter-alpha-trypsin inhibitor heavy chain-related isoform 1AGI-0127.192JtR-01S61.287
Al0639 AAvailable marker O---OOTP Ciclev10001091mscaffold_54170378741708779J C_unshiu_00009:mRNA_141.1C_unshiu_00009874868888901IQ calmodulin-binding motif proteinAGI-0170.494KmG-0148.992JtR-01S110.675NAT-01S94.639RP-0128.746
Cp1044 Bno homozygous cultivar with minor allele ------TP Ciclev10015927mscaffold_243542784358516J C_unshiu_00062:mRNA_38.1C_unshiu_00062326045332995Iron-sulfur cluster formation ABC transporter ATP-binding subunitAGI-0739.420
Bf0218 O-----SI232TP Ciclev10000452mscaffold_53603699036048487J C_unshiu_00406:mRNA_20.1C_unshiu_00406134274145322IsoamylaseAGI-0953.205KmG-0937.847RP-0970.349
Cp0975 MDisagree by Marco analysis ------TP Ciclev10012312mscaffold_679241897928192J C_unshiu_00631:mRNA_15.1C_unshiu_00631149702153660Isopentenyl pyrophosphate isomeraseAGI-0729.152
Al0417 MDisagree by Marco analysis O-----SI244,SI255TP Ciclev10015483mscaffold_23521269135214865J C_unshiu_00048:mRNA_50.1C_unshiu_00048328418330513Kelch repeat-containing F-box family proteinAGI-0620.297KmG-0662.256NAT-06S56.647
Al0630 AAvailable marker O----OTP Ciclev10008681mscaffold_1487184489198J C_unshiu_00129:mRNA_38.1C_unshiu_00129342865344872Kelch repeat-containing F-box family proteinRP-011.092
Cp2190 Bno homozygous cultivar with minor allele ------TP Ciclev10028681mscaffold_82441658224418982J C_unshiu_00021:mRNA_82.1C_unshiu_00021526890529253Kinase PfkBAGI-0813.780
Ov0311 ------TP Ciclev10022001mscaffold_31834116618342395J C_unshiu_00417:mRNA_9.1C_unshiu_004179342694543Kunitz trypsin inhibitorKmG-0410.598NAT-0982.730
Af1556 ------TP Ciclev10026643mscaffold_71110704111109191J C_unshiu_01501:mRNA_6.1C_unshiu_015015729159154Lactoylglutathione lyase/glyoxalase I family proteinAGI-0211.728
Ov0310 ------TP Ciclev10023404mscaffold_34846339548465325J C_unshiu_00026:mRNA_46.1C_unshiu_00026334715336716Lanatoside 15-O-acetylesteraseKmG-0121.291JtR-01S61.287
Mf0047 DDominant marker ------TP Ciclev10006308mscaffold_916854071687081J C_unshiu_00036:mRNA_24.2C_unshiu_00036126753128428Late embryogenesis abundant protein Lea5-DAGI-0314.323KmG-0317.139NAT-0350.708
Tf0081 ------SI038,SI324TP Ciclev10021980mscaffold_33821446838216861J C_unshiu_00575:mRNA_8.1C_unshiu_005754769351431Leucine-rich repeat disease resistance protein-likeAGI-0548.590
Vt0032 O-----SI024TP Ciclev10024737mscaffold_71790148717905433J C_unshiu_00382:mRNA_15.1C_unshiu_00382163577167662Leucine-rich repeat receptor-like serine/threonine-protein kinase BAM1AGI-0225.601RP-026.081
Cp0748 ------TP Ciclev10022288mscaffold_33467345134674900J C_unshiu_00669:mRNA_14.1C_unshiu_00669103814104779Light-dependent short hypocotyls proteinAGI-0133.562
Cp1268 ------TP Ciclev10021861mscaffold_373274367329167J C_unshiu_00199:mRNA_13.1C_unshiu_001998713488461Light-harvesting complex I protein subunit a4AGI-0544.864
Cp1533 ------TP Ciclev10021868mscaffold_348317514834270J C_unshiu_00768:mRNA_14.1C_unshiu_00768110682113065Lil3 proteinAGI-0529.039
Edw002 ------TP Ciclev10029316mscaffold_820123292014782J C_unshiu_00024:mRNA_48.2C_unshiu_00024335678337129LIM transcription factorAGI-0877.720
Bf0029 MDisagree by Marco analysis ---O--SI193,SI283J C_unshiu_00564:mRNA_19.1C_unshiu_00564138967142178Limonene synthaseAGI-0984.912KmG-0924.379JtR-09S5.526
Al0517 AAvailable marker ----OOTP Ciclev10028293mscaffold_825724392574295J C_unshiu_00363:mRNA_1.1C_unshiu_0036358927583Limonoid glucosyltransferaseAGI-0874.016JtR-0815.435
Gn0033 MDisagree by Marco analysis ------TP Ciclev10028247mscaffold_825618452563605J C_unshiu_00363:mRNA_2.1C_unshiu_003631466316198Limonoid UDP-glucosyltransferase-like proteinAGI-0873.527KmG-0886.664NAT-08286.620
Cp0039 O-----TP Ciclev10032929mscaffold_415496791551396J C_unshiu_00012:mRNA_98.1C_unshiu_00012722822724539LOB domain-containing protein 12AGI-0711.882
Fb0143 ------SI361TP Ciclev10007397mscaffold_12528380725291472J C_unshiu_00150:mRNA_43.1C_unshiu_00150325164333089LRR receptor-like serine/threonine-protein kinase ERL1AGI-0126.176RP-0164.368
Gn0067 OOthers O-----SI204,SI349TP Ciclev10004730mscaffold_92272831022730086J C_unshiu_00295:mRNA_17.1C_unshiu_00295207257208985Lycopene beta-cyclaseAGI-0346.274
Gn0069 ULess informative for main cultivars O-----SI086,SI375TP Ciclev10008410mscaffold_11094631610949617J C_unshiu_00201:mRNA_19.1C_unshiu_00201212151227232Lycopene epsilon cyclaseAGI-0157.863
Tf0028 ------SI377TP Ciclev10022572mscaffold_31978071119782241J C_unshiu_00443:mRNA_20.1C_unshiu_00443195567202424MADS-box transcription factor
Af1116 ------TP Ciclev10001154mscaffold_567490246753178J C_unshiu_00100:mRNA_44.1C_unshiu_00100361556365479Magnesium transporter MRS2-like proteinAGI-0985.810
Ov0020 AAvailable marker O---OOSI055,SI143,SI213TP Ciclev10011842mscaffold_62159842921600967J C_unshiu_00037:mRNA_7.2C_unshiu_000373771940241Magnesium-protoporphyrin IX monomethyl ester [oxidative] cyclaseAGI-0455.145KmG-0422.465NAT-043.806RP-0440.905
Vt0009 ------TP Ciclev10012382mscaffold_62493248124935909J C_unshiu_00135:mRNA_6.1C_unshiu_001352589128913Major intrinsic protein (MIP) family transporterAGI-0438.770KmG-0414.707
Wy0020 ------SI007TP Ciclev10005394mscaffold_955491955553148J C_unshiu_00164:mRNA_5.1C_unshiu_001641704620923Malate dehydrogenaseAGI-0343.563
Fb0275 O-----TP Ciclev10008562mscaffold_11588311815887517J C_unshiu_00288:mRNA_9.1C_unshiu_002885591060461Malate dehydrogenaseAGI-0155.687
Gn0052 ------TP Ciclev10005365mscaffold_91035708410359834J C_unshiu_00367:mRNA_10.1C_unshiu_00367100255102997Male sterility MS5 family proteinKmG-03215.450JtR-03112.830
Wy0032 OOthers O---OOTP Ciclev10005365mscaffold_91035708410359834J C_unshiu_00367:mRNA_10.1C_unshiu_00367100255102997Male sterility MS5 family proteinAGI-0346.121KmG-03214.572JtR-03112.840
Ov0314 AAvailable marker O---OOSI107TP Ciclev10029386mscaffold_881763718177435J C_unshiu_00728:mRNA_1.1C_unshiu_0072840704922Mannan polymerase complex subunit mnn9AGI-0856.724KmG-0858.356JtR-0821.829RP-0841.217
Mf0094 AAvailable marker ----OOTP Ciclev10026594mscaffold_737213753722616J C_unshiu_00169:mRNA_29.1C_unshiu_00169217948219072Maternal effect embryo arrest proteinAGI-0267.666KmG-0252.124JtR-0225.334
Fb0153 ------TP Ciclev10002324mscaffold_53634798636350649J C_unshiu_02857:mRNA_2.1C_unshiu_028571199414648Melanoma-associated antigen G1AGI-0951.925RP-0971.621
Vs0014 Bno homozygous cultivar with minor allele ------J C_unshiu_00375:mRNA_10.1C_unshiu_003755051551680Metallothionein
Vs0016 Bno homozygous cultivar with minor allele ------J C_unshiu_02110:mRNA_3.2C_unshiu_021102766028723MetallothioneinAGI-0525.980KmG-0817.483JtR-08
Al0614 ------TP Ciclev10022348mscaffold_34498771944991534J C_unshiu_00069:mRNA_32.1C_unshiu_00069220620224375Methyl-CpG-binding domain 4AGI-0556.788KmG-0635.565
Ov0420 MDisagree by Marco analysis ------TP Ciclev10019489mscaffold_32484038624845254J C_unshiu_00286:mRNA_25.1C_unshiu_00286176709181573Methylenetetrahydrofolate reductase (NAD(P)H)AGI-0541.306JtR-0541.208
Fb0329 ------TP Ciclev10004180mscaffold_92923783829242883J C_unshiu_00606:mRNA_2.1C_unshiu_006061369318703Methyltransferase MT-A70 family protein isoform 1AGI-0360.686
Ov0322 ULess informative for main cultivars ------TP Ciclev10003485mscaffold_53639898836399239J C_unshiu_00241:mRNA_9.1C_unshiu_002413954640639Microsomal signal peptidase 12 kDa proteinAGI-0950.810KmG-0942.179JtR-09S62.873RP-0970.369
Af1629 ------TP Ciclev10012332mscaffold_629695272973147J C_unshiu_00060:mRNA_62.1C_unshiu_00060539807543307Mitochondrial carnitine/acylcarnitine carrier protein CACLAGI-0739.420
Fb0313 ------TP Ciclev10002602mscaffold_52980319629804310J C_unshiu_00570:mRNA_7.1C_unshiu_005706932870168Mitochondrial import inner membrane translocase subunit tim23RP-079.871
Vs0015 OOthers ------J C_unshiu_00001:mRNA_84.1C_unshiu_00001561308564986Mitochondrial outer membrane protein porin of 34 kDaAGI-09115.452KmG-0934.185JtR-09S15.823
Al0212 O-----TP Ciclev10026128mscaffold_752580455259521J C_unshiu_00288:mRNA_19.1C_unshiu_00288142758144183Mitochondrial uncoupling protein 3KmG-0243.821JtR-0230.507RP-08
Al0022 ------TP Ciclev10011465mscaffold_62536431725368608J C_unshiu_00009:mRNA_62.1C_unshiu_00009346583350755Mitochondrial-processing peptidase subunit alphaSA-0942.503
Al0415 AAvailable marker ----OOSI120,SI310TP Ciclev10004660mscaffold_927329002738896J C_unshiu_00040:mRNA_76.1C_unshiu_00040632823638463Mitogen-activated protein kinase 14AGI-0324.885KmG-031NAT-0341.576
Lp0206 O-----TP Ciclev10011764mscaffold_62083650920840107J C_unshiu_00052:mRNA_56.1C_unshiu_00052452105455631Monodehydroascorbate reductaseAGI-0458.655
Cp0214 OOthers ------TP Ciclev10016075mscaffold_22973224929735969J C_unshiu_00073:mRNA_25.1C_unshiu_00073178507182191MOSC domain-containing protein 2, mitochondrialAGI-0646.660
Af1505 ------TP Ciclev10031326mscaffold_415312621535758J C_unshiu_00012:mRNA_96.1C_unshiu_00012704342708725Multiple inositol polyphosphate phosphatase 1AGI-0712.283
Tf0056 AAvailable marker O---OOSI061,SI137TP Ciclev10012265mscaffold_62230592222308021J C_unshiu_00252:mRNA_6.1C_unshiu_002524863249537Myb domain protein 42AGI-0449.225
Tf0307 Bno homozygous cultivar with minor allele O-----TP Ciclev10009286mscaffold_12539568825397278J C_unshiu_00442:mRNA_24.1C_unshiu_00442209015209831Myb domain protein 5AGI-0123.266
Tf0094 ------SI006TP Ciclev10031937mscaffold_42395703823959134J C_unshiu_00001:mRNA_145.1C_unshiu_00001950657954895Myb family transcription factor APLAGI-0777.141
Tf0117 ------TP Ciclev10005596mscaffold_91510737515113804J C_unshiu_00170:mRNA_11.1C_unshiu_001709120597326Myb family transcription factor APLAGI-0346.274
Tf0402 ------TP Ciclev10015893mscaffold_23621196136216858J C_unshiu_00077:mRNA_57.1C_unshiu_00077335424340163MYB-CC type transfactorAGI-069.560
Tf0050 ------SI104,SI346TP Ciclev10012152mscaffold_62487484024876388J C_unshiu_00135:mRNA_12.1C_unshiu_001358426085810Myb-related protein 306AGI-0436.106
Tf0256 AtAvailable marker O---OOTP Ciclev10021699mscaffold_34342018743422432J C_unshiu_00411:mRNA_13.1C_unshiu_00411116444118424Myb-related protein Myb4AGI-0552.314
Ov0004 ------TP Ciclev10025545mscaffold_72036008620363290J C_unshiu_00650:mRNA_9.1C_unshiu_006508667089289Myo-inositol-1 phosphate synthaseKmG-0217.680NAT-02S
Tf0240 ------SI184TP Ciclev10018505mscaffold_34271899142733040J C_unshiu_00386:mRNA_19.1C_unshiu_00386164396178993Myosin 2
Al0204 ------TP Ciclev10008298mscaffold_1275263280936J C_unshiu_00003:mRNA_150.2C_unshiu_0000311278841133567Myosin heavy chain-like proteinJtR-09S5.527
Cp1200 MDisagree by Marco analysis O-----J C_unshiu_00810:mRNA_8.1C_unshiu_0081099220102123Myrcene synthase, chloroplasticAGI-0838.604
Sd0004 ------J C_unshiu_00810:mRNA_8.1C_unshiu_0081099220102123Myrcene synthase, chloroplasticAGI-0840.459
Af1110 ------TP Ciclev10028599mscaffold_896568659660001J C_unshiu_01425:mRNA_1.1C_unshiu_014253335522N-carbamoylputrescine amidaseAGI-0856.690
Lp0031 ------TP Ciclev10027944mscaffold_82226140822266208J C_unshiu_00639:mRNA_5.1C_unshiu_006394532149901N-terminal isoform 1AGI-089.183
Tf0332 ------SI081TP Ciclev10001976mscaffold_53758683437589255J C_unshiu_00985:mRNA_11.1C_unshiu_009859771299966NAC domain-containing protein 2AGI-0945.548
Wy0025 ------SI004TP Ciclev10032547mscaffold_42443400524435526J C_unshiu_00001:mRNA_229.1C_unshiu_0000114464461447952NAC domain-containing protein 29
Tf0066 ------SI221TP Ciclev10008812mscaffold_11827081818273015J C_unshiu_00187:mRNA_34.1C_unshiu_00187287391289585NAC domain-containing protein 72AGI-0158.420
Tf0076 ------SI266TP Ciclev10031150mscaffold_472001357204232J C_unshiu_00013:mRNA_63.3C_unshiu_00013459064463137NAC domain-containing protein 78AGI-0738.565
Tf0310 ------TP Ciclev10031598mscaffold_41968188419685929J C_unshiu_00099:mRNA_27.1C_unshiu_00099233334237357NAC domain-containing protein 8AGI-0754.869
Bf0125 ------TP Ciclev10001956mscaffold_51576493715766976J C_unshiu_00293:mRNA_8.1C_unshiu_00293104196105925NAC transcription factorNAT-038.920RP-0331.431
Tf0147 ------TP Ciclev10001956mscaffold_51576493715766976J C_unshiu_00293:mRNA_8.1C_unshiu_00293104196105925NAC transcription factorAGI-0222.436
Tf0368 AAvailable marker O---OOSI102TP Ciclev10020717mscaffold_34096377440965744J C_unshiu_00735:mRNA_9.1C_unshiu_007357667378652NAC transcription factor 29AGI-0548.590
Gmom22 ------TP Ciclev10032304mscaffold_42404159324043549J C_unshiu_00001:mRNA_158.1C_unshiu_0000110377271039688NAC transcription factor NAM-B1AGI-0778.469KmG-072.659
Tf0323 ------SI030TP Ciclev10032304mscaffold_42404159324043549J C_unshiu_00001:mRNA_158.1C_unshiu_0000110377271039688NAC transcription factor NAM-B1
Tf0339 ------SI019TP Ciclev10032304mscaffold_42404159324043549J C_unshiu_00001:mRNA_158.1C_unshiu_0000110377271039688NAC transcription factor NAM-B1
Af1580 ------TP Ciclev10016368mscaffold_23501384835015439J C_unshiu_00048:mRNA_76.1C_unshiu_00048512885514767NAD(P)-binding Rossmann-fold superfamily protein isoform 2AGI-0620.932
Tf0336 ------TP Ciclev10029022mscaffold_81057467310578797J C_unshiu_02599:mRNA_1.1C_unshiu_025991036214310NAD(P)-linked oxidoreductase superfamily proteinAGI-0854.304
Al0308 ------SI045TP Ciclev10028262mscaffold_82452111624524868J C_unshiu_00021:mRNA_97.1C_unshiu_00021630527634212NAD(P)H dehydrogenase B2AGI-0556.788
Tf0230 ------SI140TP Ciclev10008206mscaffold_12346384323470911J C_unshiu_00338:mRNA_22.1C_unshiu_00338163174169978NAD-dependent protein deacetylase SRT1
Tf0406 Bno homozygous cultivar with minor allele O-----TP Ciclev10008206mscaffold_12346384323470911J C_unshiu_00338:mRNA_22.1C_unshiu_00338163174169978NAD-dependent protein deacetylase SRT1AGI-0128.515
Af1047 ------TP Ciclev10019002mscaffold_31635722716363309J C_unshiu_01252:mRNA_3.1C_unshiu_012526066966705NADH dehydrogenase subunit 11AGI-0541.306
Cp0459 ------TP Ciclev10016822mscaffold_22754966027551146J C_unshiu_00017:mRNA_86.1C_unshiu_00017707192708314NADH dehydrogenase-like complex LAGI-0674.140
Bf0011 AAvailable marker O---OOSI218TP Ciclev10008900mscaffold_147228894726339J C_unshiu_00547:mRNA_9.1C_unshiu_005475455657654NADH-cytochrome b5 reductaseAGI-0167.331RP-0123.653
Bf0033 ------SI356,SI379TP Ciclev10007537mscaffold_12720499827211059J C_unshiu_00347:mRNA_22.1C_unshiu_00347166830172467NADPH--hemoprotein reductaseAGI-0132.408RP-0185.146
Mf0007 ULess informative for main cultivars ------TP Ciclev10008907mscaffold_11747133017472833J C_unshiu_00044:mRNA_52.1C_unshiu_00044424343425685NADPH-dependent codeinone reductase-like protein
Al0206 AAvailable marker ----OOTP Ciclev10032727mscaffold_41230948012311438J C_unshiu_00365:mRNA_26.1C_unshiu_00365192643194502NADPH-dependent codeinone reductase-like proteinAGI-0738.565JtR-0752.611RP-0729.935
Gn0097 ------TP Ciclev10005133mscaffold_91024623910248409J C_unshiu_00372:mRNA_8.1C_unshiu_003727703979209Naringenin-chalcone synthaseAGI-02
Fb0364 AAvailable marker ----OOSI373TP Ciclev10022215mscaffold_31381049713813004J C_unshiu_00542:mRNA_3.1C_unshiu_005421594018433Nascent polypeptide-associated complex subunit alpha-like proteinAGI-0541.306KmG-05S55.482JtR-0539.609RP-0556.834
Tf0153 AAvailable marker O---OOTP Ciclev10022594mscaffold_31695742716959735J C_unshiu_01562:mRNA_2.1C_unshiu_015621205915864Nascent polypeptide-associated complex subunit betaAGI-0541.267
Tf0154 AAvailable marker O----OTP Ciclev10022594mscaffold_31695742716959735J C_unshiu_01562:mRNA_2.1C_unshiu_015621205915864Nascent polypeptide-associated complex subunit beta
Cp1791 Bno homozygous cultivar with minor allele ------TP Ciclev10027428mscaffold_71160446411607028J C_unshiu_00582:mRNA_4.1C_unshiu_005821006711470NBS-LRR type disease resistance proteinAGI-0212.969
Lp0202 O-----TP Ciclev10006509mscaffold_931310063134438J C_unshiu_00051:mRNA_31.2C_unshiu_00051239802243699NEDD8-activating enzyme E1 catalytic subunitAGI-0323.085
Af1600 ------TP Ciclev10013134mscaffold_62275802722760875J C_unshiu_00038:mRNA_51.4C_unshiu_00038305110307864Negatively light-regulated proteinAGI-045.122
Ov0501 ------TP Ciclev10019938mscaffold_34808947348091232J C_unshiu_00026:mRNA_86.1C_unshiu_00026712172713868Nepenthesin IIRP-0561.026
Lp0235 O-----TP Ciclev10019848mscaffold_394660719468445J C_unshiu_00227:mRNA_19.1C_unshiu_00227186549194369Nepenthesin IIAGI-0543.412RP-0544.731
Wy0055Wy0055.em ------J C_unshiu_00005:mRNA_81.1C_unshiu_00005686926696896NeurochondrinAGI-01118.691
Cp0996 Bno homozygous cultivar with minor allele ------SI340TP Ciclev10004474mscaffold_9543444546746J C_unshiu_00007:mRNA_105.1C_unshiu_00007630727633783Neutral/alkaline invertaseAGI-039.366
Al0647 MDisagree by Marco analysis O-----TP Ciclev10016069mscaffold_23264074332643349J C_unshiu_00070:mRNA_53.1C_unshiu_00070403765406305Nitric oxide synthase-interacting protein homologAGI-06KmG-0646.877
Mf0058 T3 or more alleleic model ------TP Ciclev10022378mscaffold_34681881746822856J C_unshiu_00053:mRNA_58.1C_unshiu_00053481338485184Nitrogen regulatory protein P-IIAGI-0857.196JtR-0539.516
Cp0849 ------SI355TP Ciclev10012425mscaffold_61765146617653457J C_unshiu_00090:mRNA_56.2C_unshiu_00090364770367591Non-green plastid inner envelope membrane protein
Tf0432 AAvailable marker O---OOTP Ciclev10016685mscaffold_23142045731425299J C_unshiu_00091:mRNA_39.1C_unshiu_00091370141375026Nuclear transcription factor Y subunit A-7AGI-0638.958
Tf0243 ------SI231TP Ciclev10032893mscaffold_436366673641089J C_unshiu_00236:mRNA_46.1C_unshiu_00236271647281392Nuclear transcription factor Y subunit B-8
Tf0348 ------SI118TP Ciclev10012920mscaffold_61161199411614367J C_unshiu_00236:mRNA_46.1C_unshiu_00236271647281392Nuclear transcription factor Y subunit B-8AGI-0896.565
Tf0334 ------SI034TP Ciclev10007003mscaffold_93098334730984159J C_unshiu_00003:mRNA_76.2C_unshiu_00003557862561962Nuclear transcription factor Y subunit C-9
Cp2229 AAvailable marker ----OOTP Ciclev10022058mscaffold_341174854120274J C_unshiu_00318:mRNA_6.1C_unshiu_003184437647085Nucleoside diphosphate kinaseAGI-0527.135
Ov0114 ------J C_unshiu_00206:mRNA_12.3C_unshiu_002067598077488Nucleoside diphosphate kinaseKmG-03218.485JtR-03111.761
Vs0004 ------TP Ciclev10021761mscaffold_320786912083111J C_unshiu_00490:mRNA_23.1C_unshiu_00490182148190847Nucleosome assembly proteinKmG-0651.244
Al0304 MDisagree by Marco analysis ------SI259,SI293TP Ciclev10013536mscaffold_62261697922619271J C_unshiu_00038:mRNA_27.1C_unshiu_00038174815175255Nutrient reservoir, putativeAGI-0446.361KmG-0416.744NAT-04RP-0454.617
Al0628 ------TP Ciclev10004696mscaffold_92897433728977865J C_unshiu_00045:mRNA_76.1C_unshiu_00045547196550605O-glucosyltransferase rumi likeKmG-0315.650
Fb0159 AAvailable marker O---OOSI227TP Ciclev10028241mscaffold_82345663023459052J C_unshiu_00375:mRNA_4.1C_unshiu_003752795230443O-Glycosyl hydrolases family 17 proteinAGI-0813.499KmG-089.978RP-082.327
Ov0104 AAvailable marker O---OOSI216TP Ciclev10004850mscaffold_91344033213442904J C_unshiu_02379:mRNA_2.1C_unshiu_023792290625482Obtusifoliol 14-alpha demethylaseAGI-0856.724JtR-0828.207
Tf0397 ------SI008TP Ciclev10013334mscaffold_62365725623657810J C_unshiu_00098:mRNA_65.1C_unshiu_00098441975442704Ocs element-binding factor 1AGI-0440.646
Cp1798 AAvailable marker ----OOTP Ciclev10012134mscaffold_62031967720323198J C_unshiu_00215:mRNA_34.1C_unshiu_00215205164208490Orange 2AGI-0460.291
Cp1279 AAvailable marker ----OOTP Ciclev10031414mscaffold_41290077712903692J C_unshiu_00461:mRNA_17.1C_unshiu_00461144878147555Ornithine aminotransferaseAGI-0740.184
Ov0407 AAvailable marker ----OOTP Ciclev10000563mscaffold_53704341737051080J C_unshiu_00773:mRNA_1.1C_unshiu_00773788815416OSBP(Oxysterol binding protein)-related protein 1C isoform 3AGI-0946.097KmG-0948.606JtR-09S66.176RP-0976.027
Bf0138 MDisagree by Marco analysis O-----TP Ciclev10019462mscaffold_360724606076187J C_unshiu_00428:mRNA_16.2C_unshiu_00428119232121021Oxygen-evolving enhancer protein 2, chloroplasticNAT-0514.555RP-0524.995
Bf0004 ------SI273TP Ciclev10005212mscaffold_92956300329568705J C_unshiu_00056:mRNA_33.1C_unshiu_00056220997225323Pentatricopeptide repeat superfamily protein, putative isoform 1AGI-0358.312
Af1443 ------TP Ciclev10011413mscaffold_62504839825053494J C_unshiu_00009:mRNA_3.1C_unshiu_000091576528846Pentatricopeptide repeat-containing family proteinAGI-0433.808
Cp1880 AAvailable marker -----OTP Ciclev10016235mscaffold_293516309354621J C_unshiu_00067:mRNA_9.1C_unshiu_000677125274672Peptide deformylase
Tf0053 ------SI305TP Ciclev10022321mscaffold_32915342529156189J C_unshiu_01169:mRNA_3.1C_unshiu_011693914141442Peptide methionine sulfoxide reductase B5AGI-0542.265
Al0402 AAvailable marker O---OOJ C_unshiu_00008:mRNA_88.1C_unshiu_00008564906567158Peptide upstream ORF protein, putativeAGI-0881.190KmG-0444.163NAT-0428.388
Wy0062Wy0062.em ------TP Ciclev10011305mscaffold_61521496915222324J C_unshiu_00034:mRNA_76.1C_unshiu_00034634791641934Peptidyl-prolyl cis-trans isomerase PASTICCINO1AGI-0278.531
Af1026 O-----TP Ciclev10016450mscaffold_22469026124692734J C_unshiu_00136:mRNA_33.1C_unshiu_00136278221280719Period circadian protein, putative isoform 1RP-06.124.027
Af1589 ------TP Ciclev10005524mscaffold_93099512930999295J C_unshiu_00003:mRNA_80.1C_unshiu_00003574672576940Peroxisomal 2,4-dienoyl-CoA reductaseAGI-0377.744
Lp0034 ULess informative for main cultivars O-----J C_unshiu_00087:mRNA_54.1C_unshiu_00087395005398280Peroxisomal membrane protein 13
Tf0315 AAvailable marker O---OOTP Ciclev10012089mscaffold_61408718114090115J C_unshiu_00287:mRNA_20.1C_unshiu_00287221944222997PhantasticaAGI-0893.657
Ov0510 MDisagree by Marco analysis ------TP Ciclev10011175mscaffold_61001656410019369J C_unshiu_00279:mRNA_11.1C_unshiu_00279116848119657Phenylalanine ammonia-lyase 1KmG-0462.284JtR-043.789
Af1452 ------TP Ciclev10018443mscaffold_355184575529974J C_unshiu_00900:mRNA_3.1C_unshiu_009002018630140Pheromone-processing carboxypeptidase kex1AGI-0529.863
Lp0009 DDominant marker ------TP Ciclev10005585mscaffold_93017179130177202J C_unshiu_00134:mRNA_8.1C_unshiu_001347141076705Phosphatase 2C 76 isoform 1KmG-05S36.573JtR-0512.427
Bf0005 ------SI194TP Ciclev10005100mscaffold_9465444468143J C_unshiu_00007:mRNA_115.1C_unshiu_00007710354712926Phosphatase 2C family proteinAGI-038.177
Al0618 AAvailable marker ----OOTP Ciclev10000916mscaffold_54087279340877775J C_unshiu_00123:mRNA_34.1C_unshiu_00123204269222067Phosphatase 2c, putative isoform 6AGI-0938.004KmG-0973.330
Af3822 ------TP Ciclev10004695mscaffold_954942545497030J C_unshiu_00164:mRNA_13.1C_unshiu_001647405975936Phosphate transporterAGI-0344.864
Af1253 ------TP Ciclev10020405mscaffold_332012063204377J C_unshiu_00163:mRNA_29.1C_unshiu_00163211551214568Phosphate/phosphoenolpyruvate translocatorAGI-0524.709
Fb0124 ------SI167,SI212TP Ciclev10014164mscaffold_21108880811095416J C_unshiu_00184:mRNA_31.1C_unshiu_00184275231281575Phosphoenolpyruvate carboxylase
Al0320 ------TP Ciclev10020878mscaffold_3541575543121J C_unshiu_01206:mRNA_1.1C_unshiu_0120643465819Phosphoenolpyruvate carboxylase family proteinJtR-0523.890
Al0320.2Al0320.em AAvailable marker -----OTP Ciclev10020878mscaffold_3541575543121J C_unshiu_01206:mRNA_1.1C_unshiu_0120643465819Phosphoenolpyruvate carboxylase family proteinJtR-0523.890
Cp1143 MDisagree by Marco analysis O-----TP Ciclev10000651mscaffold_53985853139862402J C_unshiu_00096:mRNA_9.1C_unshiu_000967071373505Phosphoglycerate dehydrogenaseAGI-0942.158
Lg2002 ------TP Ciclev10028055mscaffold_826464582649562J C_unshiu_00152:mRNA_44.1C_unshiu_00152294607297615Phosphoglycerate dehydrogenaseAGI-0869.974
Cp0030 O-----TP Ciclev10019700mscaffold_34381564743818118J C_unshiu_00869:mRNA_1.1C_unshiu_008691761664Phospholipase A1-Igamma1, chloroplasticAGI-0553.642
Vt0030Vt0030.k O-----TP Ciclev10024917mscaffold_71127170511277014J C_unshiu_01240:mRNA_4.1C_unshiu_012402765532960Phospholipase DAGI-0212.615
Fb0227 ------TP Ciclev10026002mscaffold_729380592940407J C_unshiu_00084:mRNA_42.1C_unshiu_00084428180435326Phospholipase, patatin familyAGI-0270.082RP-02.212.696
Mf0092 AAvailable marker ----OOSI138TP Ciclev10012056mscaffold_62113778321142157J C_unshiu_00052:mRNA_27.2C_unshiu_00052168316172622Phosphopyruvate hydrataseAGI-0459.190KmG-0430.795NAT-0411.576
Cp1162 AAvailable marker ----OOTP Ciclev10001345mscaffold_53590818135912917J C_unshiu_00255:mRNA_35.1C_unshiu_00255260170264872Phosphoribosylaminoimidazolesuccinocarboxamide synthaseAGI-0953.232RP-0969.673
Cp1334 MDisagree by Marco analysis ------J C_unshiu_01048:mRNA_12.1C_unshiu_010488738690179Phosphoribosylformylglycinamidine cyclo-ligaseAGI-0346.968
Bf0177 ------SI060TP Ciclev10022075mscaffold_381866898189902J C_unshiu_00154:mRNA_43.2C_unshiu_00154341574344576Phosphoserine phosphataseAGI-0544.047
Cp0221 ULess informative for main cultivars ------TP Ciclev10016539mscaffold_23064853130649856J C_unshiu_00125:mRNA_61.1C_unshiu_00125360098361069Photosystem I reaction center subunit III
Cp2232 AAvailable marker ----OOTP Ciclev10002687mscaffold_51780952317810742J C_unshiu_01815:mRNA_5.1C_unshiu_018152859329777Photosystem I reaction center subunit NAGI-0222.436
Af1575 ------TP Ciclev10029551mscaffold_81752483517526697J C_unshiu_02252:mRNA_4.1C_unshiu_0225279979032Photosystem II reaction center W proteinAGI-0856.724
Lp0126 AAvailable marker O---OOTP Ciclev10025164mscaffold_739468183949964J C_unshiu_00801:mRNA_10.1C_unshiu_0080197228100216Phototropic-responsive NPH3 family proteinAGI-0265.295KmG-0254.892JtR-0226.278RP-02.2
Gn0008 OOthers ------SI176TP Ciclev10005632mscaffold_91778963417793258J C_unshiu_00098:mRNA_1.1C_unshiu_00098512017442Phytoene desaturaseAGI-0346.274
Gn0065 Bno homozygous cultivar with minor allele O-----J C_unshiu_00021:mRNA_4.1C_unshiu_000213417838574Phytoene desaturaseAGI-0979.316
Cp2188 AAvailable marker ----OOTP Ciclev10028997mscaffold_82466672924669708J C_unshiu_00021:mRNA_116.1C_unshiu_00021778469782836Phytol kinaseAGI-082.186
Fb2159 ------SI205,SI300TP Ciclev10021136mscaffold_33960643139608387J C_unshiu_00037:mRNA_76.1C_unshiu_00037551437553057Pirin family proteinAGI-0549.856KmG-05S68.781JtR-0541.770SA-09
Mf0039 AAvailable marker O---OOSI016,SI147J C_unshiu_00343:mRNA_25.1C_unshiu_00343221381224081PLAC8 family proteinAGI-055.510KmG-05S5.643JtR-0510.014
Af1370 ------TP Ciclev10009015mscaffold_188228348826308J C_unshiu_00579:mRNA_6.1C_unshiu_005794650750108Plasma membraneAGI-0156.590
Al0505 ------TP Ciclev10032306mscaffold_4947943949892J C_unshiu_00012:mRNA_14.1C_unshiu_00012117194125051Plasma membrane intrinsic proteinRP-0751.815
If0011 Bno homozygous cultivar with minor allele ------TP Ciclev10013189mscaffold_62052256920523527J C_unshiu_00331:mRNA_8.1C_unshiu_00331122906127189PLASMODESMATA CALLOSE-BINDING PROTEIN 3
Wy0058Wy0058.em ------TP Ciclev10016274mscaffold_22914050929143804J C_unshiu_00022:mRNA_58.1C_unshiu_00022424974428249Plastid ribosomal protein L15
Af1059 ------TP Ciclev10011827mscaffold_62306638423072168J C_unshiu_00038:mRNA_98.1C_unshiu_00038554982560549Plastidic glucose transporter 4AGI-0444.840
Bf0008 ------SI309TP Ciclev10012950mscaffold_62246756522470029J C_unshiu_00038:mRNA_5.1C_unshiu_000384098343503Pollen-specific C2 domain containing proteinAGI-0447.391RP-0450.862
Tf0410 AAvailable marker O---OOTP Ciclev10032838mscaffold_4213798215848J C_unshiu_00168:mRNA_34.1C_unshiu_00168273522275858Pollen-specific protein SF3AGI-076.146
Fb2156Fb2156.lg O-----TP Ciclev10000537mscaffold_53999223439996269J C_unshiu_00096:mRNA_31.1C_unshiu_00096198494202358Poly(A) binding protein 6, putative isoform 1AGI-0941.254
Lp0212 O-----TP Ciclev10030930mscaffold_42269705622699336J C_unshiu_00004:mRNA_48.1C_unshiu_00004381547383756Polygalacturonase 1 beta-like protein 3AGI-0769.544
Al0011Al0010.2 ------TP Ciclev10012654mscaffold_61031699910318328J C_unshiu_00806:mRNA_1.2C_unshiu_008062130522892PolyubiquitinAGI-0346.768
Af1062 ------TP Ciclev10012766mscaffold_61489293914897320J C_unshiu_00102:mRNA_47.1C_unshiu_00102331172333886PRA1 family protein A1AGI-0893.624
Gmom26 ------TP Ciclev10005911mscaffold_9713868716708J C_unshiu_00007:mRNA_76.1C_unshiu_00007473625476336Prefoldin subunit 3AGI-0310.918
Af1486 ------TP Ciclev10029576mscaffold_81751092617513265J C_unshiu_00962:mRNA_1.1C_unshiu_009624342684Prefoldin subunit 4AGI-0859.562
Al0601 ------J C_unshiu_00065:mRNA_8.1C_unshiu_000653926843421Probable GTP diphosphokinase RSH2, chloroplasticAGI-0893.624
Wy0028 AAvailable marker ----OOTP Ciclev10007806mscaffold_12500134125004726J C_unshiu_00150:mRNA_3.1C_unshiu_001501865222079Probable pectinesterase/pectinesterase inhibitor 61AGI-0126.171KmG-01
Bf0024 O-----SI093TP Ciclev10002093mscaffold_53813466238138860J C_unshiu_00319:mRNA_24.1C_unshiu_00319167810171973Probable protein phosphatase 2C 11AGI-0539.006
Al0224 AAvailable marker -O--OOTP Ciclev10015872mscaffold_22663015426632900J C_unshiu_00262:mRNA_19.1C_unshiu_00262115955118351Probable xyloglucan endotransglucosylase/hydrolase protein 27AGI-0667.116KmG-0617.100JtR-06S3.805NAT-06S8.025RP-06.128.576
Af1593 ------TP Ciclev10015971mscaffold_22773839727741912J C_unshiu_00745:mRNA_8.1C_unshiu_007458226585742Prolactin regulatory element-binding protein, putativeAGI-0661.501
Fb0225 ------TP Ciclev10008570mscaffold_148739704878979J C_unshiu_00039:mRNA_6.1C_unshiu_000395498059746Protein arginine N-methyltransferase 1RP-0533.168
Cp1736 ------TP Ciclev10026179mscaffold_756400585643125J C_unshiu_00761:mRNA_15.2C_unshiu_007618999192755Protein CbbYAGI-0250.716
Gmom19 ------TP Ciclev10011554mscaffold_62145081121454133J C_unshiu_00037:mRNA_27.1C_unshiu_00037166873170276Protein CCA1AGI-0454.804
Bf0016 O-----TP Ciclev10002605mscaffold_53578241935784765J C_unshiu_00255:mRNA_23.1C_unshiu_00255146364148653Protein CutA 1, chloroplasticRP-0967.943
Af1554 ------TP Ciclev10009386mscaffold_12375375923756754J C_unshiu_00080:mRNA_59.1C_unshiu_00080491826492778Protein CWC15AGI-0128.775
Bf0202 ------TP Ciclev10000607mscaffold_52410375324107361J C_unshiu_00011:mRNA_55.1C_unshiu_00011511309514460Protein ETHYLENE INSENSITIVE 3RP-0927.641
Cp2223 OOthers ------TP Ciclev10022371mscaffold_334833343485637J C_unshiu_00933:mRNA_9.1C_unshiu_009338695889273Protein LATERAL ORGAN BOUNDARIESAGI-0525.049
Gmom04 ------TP Ciclev10019228mscaffold_34747618847479361J C_unshiu_00023:mRNA_74.1C_unshiu_00023480170486801Protein LHYAGI-0573.504
Gmom16 ------TP Ciclev10019228mscaffold_34747618847479361J C_unshiu_00023:mRNA_74.1C_unshiu_00023480170486801Protein LHYAGI-0573.007
Tf0419 AAvailable marker OOO--OTP Ciclev10019228mscaffold_34747618847479361J C_unshiu_00023:mRNA_74.1C_unshiu_00023480170486801Protein LHY
Cp0537 AAvailable marker O---OOTP Ciclev10016779mscaffold_23418921634193815J C_unshiu_00002:mRNA_71.2C_unshiu_00002543564547918Protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 10AGI-0625.930
Cp0237 ------TP Ciclev10033007mscaffold_41065238110655082J C_unshiu_00483:mRNA_11.1C_unshiu_00483100177109515Protein LSD1AGI-0735.506
Gn0101 ------TP Ciclev10025706mscaffold_7662802667420J C_unshiu_00353:mRNA_30.1C_unshiu_00353203269207136Protein MID1-COMPLEMENTING ACTIVITY 1AGI-0277.881
Tf0012 AAvailable marker ----OOTP Ciclev10018673mscaffold_33760149337607586J C_unshiu_00502:mRNA_21.1C_unshiu_00502155419162660Protein NLP8AGI-0547.173
Cp0059 O-----TP Ciclev10031015mscaffold_42307572823081009J C_unshiu_00001:mRNA_13.1C_unshiu_000018982896147Protein NLRC3AGI-0886.856
Lp0207 O-----TP Ciclev10021695mscaffold_361403326142252J C_unshiu_01103:mRNA_8.1C_unshiu_011036753169104Protein ODORANT1AGI-0545.374RP-0525.010
Mf0067 OOthers ------TP Ciclev10008855mscaffold_172645697269002J C_unshiu_00837:mRNA_9.1C_unshiu_008379180796079Protein phosphatase 1 regulatory subunit pprAKmG-03218.460JtR-03113.247
Tf0292 OOthers O-----TP Ciclev10006112mscaffold_93113978931143240J C_unshiu_00003:mRNA_98.2C_unshiu_00003698480711976Protein strawberry notchAGI-0377.793
Fb1751 ------SI264TP Ciclev10025011mscaffold_779775277984425J C_unshiu_00121:mRNA_40.1C_unshiu_00121250743257054Protein STRUBBELIG-RECEPTOR FAMILY 8
Cp0632 AAvailable marker O---OOTP Ciclev10007941mscaffold_12769893427703620J C_unshiu_00237:mRNA_7.1C_unshiu_002374093045531Protein translocase subunit SecYAGI-0856.724
Lp0118 MDisagree by Marco analysis ------J C_unshiu_00008:mRNA_8.1C_unshiu_000084636354318Protein trichome birefringence-like 33AGI-0273.759KmG-0275.522JtR-0224.745
Gn0051 AAvailable marker ----OOSI306,SI366TP Ciclev10011780mscaffold_62408226324084635J C_unshiu_00133:mRNA_13.1C_unshiu_001336387065165Protein UNUSUAL FLORAL ORGANSAGI-0439.510KmG-040.447
Af1068 O-----TP Ciclev10021732mscaffold_34011000840113420J C_unshiu_00335:mRNA_13.1C_unshiu_0033599790103133Protein vip1AGI-0548.750
Af1622 ------TP Ciclev10008520mscaffold_11811726418119451J C_unshiu_00187:mRNA_23.3C_unshiu_00187141733143877Protochlorophyllide reductase, chloroplasticAGI-0154.754
Fb0234 ------SI250,SI265TP Ciclev10032271mscaffold_41617683616178421J C_unshiu_00086:mRNA_8.1C_unshiu_000865276454349Protodermal factor 1.3, putativeAGI-0745.424RP-0730.993
Bf0145 O--O--SI272,SI327,SI368TP Ciclev10027909mscaffold_82273083922737522J C_unshiu_00158:mRNA_13.1C_unshiu_00158102548109253Pseudo-response regulator 37AGI-0820.703RP-085.775
Wy0060Wy0060.em ------TP Ciclev10020776mscaffold_34699874547002683J C_unshiu_00023:mRNA_2.1C_unshiu_00023712911067Pto kinase interactor 1AGI-0214.597
Af1056 ------TP Ciclev10015905mscaffold_22659597226598955J C_unshiu_00262:mRNA_14.1C_unshiu_002628457387520Purple acid phosphatase 3AGI-0666.320
Cp0026 ------TP Ciclev10014741mscaffold_22493868624943643J C_unshiu_00472:mRNA_8.1C_unshiu_004728527889618Putative ADP-glucose pyrophosphorylase small subunitAGI-0672.449
Af1467 ------TP Ciclev10008651mscaffold_12417163224175378J C_unshiu_00047:mRNA_19.1C_unshiu_00047116658120038Putative amino acid permease 7AGI-0129.784
Tf0279 ------SI073TP Ciclev10019219mscaffold_34903144149035202J C_unshiu_00018:mRNA_78.1C_unshiu_00018562898566588Putative anthocyanin regulatorAGI-0580.539
Tf0293 AAvailable marker OOO--OTP Ciclev10019219mscaffold_34903144149035202J C_unshiu_00018:mRNA_78.1C_unshiu_00018562898566588Putative anthocyanin regulator
Fb1678 O-----TP Ciclev10022198mscaffold_360002666002833J C_unshiu_00997:mRNA_6.2C_unshiu_009974442046811Putative axial regulator YABBY 2AGI-0545.297
Wy0019 ------SI031TP Ciclev10029354mscaffold_81806476118071003J C_unshiu_00251:mRNA_10.1C_unshiu_00251118858124101Putative axial regulator YABBY 2
Tf0290 AAvailable marker O---OOTP Ciclev10029354mscaffold_81806476118071003J C_unshiu_00251:mRNA_10.1C_unshiu_00251118858124101Putative axial regulator YABBY 2AGI-0857.802
Cp1034 AtAvailable marker ----OOTP Ciclev10005575mscaffold_92110789421109983J C_unshiu_00160:mRNA_22.1C_unshiu_00160182942184946Putative calcium-binding protein CML48AGI-0346.760
Cp1738 AAvailable marker -----OSI237,SI296TP Ciclev10025941mscaffold_753884585389981J C_unshiu_00303:mRNA_12.1C_unshiu_00303100918102276Putative clathrin assembly protein
Cp0018 ------TP Ciclev10005068mscaffold_956054705610840J C_unshiu_00057:mRNA_49.1C_unshiu_00057415460428173Putative E3 ubiquitin-protein ligase HERC1AGI-0344.848
Cp1031 AAvailable marker -O--OOTP Ciclev10005224mscaffold_923243132328666J C_unshiu_00394:mRNA_4.1C_unshiu_003941197016480Putative E3 ubiquitin-protein ligase MARCH10AGI-0318.610
Tf0289 ------SI207TP Ciclev10020486mscaffold_3915818919213J C_unshiu_01070:mRNA_6.1C_unshiu_010704354546732Putative E3 ubiquitin-protein ligase UBR7
Af1568 ------J C_unshiu_00591:mRNA_15.1C_unshiu_00591108974112318Putative elongation factor 2-likeAGI-0124.954
Cp0672 ------TP Ciclev10007769mscaffold_12826220228267878J C_unshiu_00005:mRNA_26.1C_unshiu_00005170218174432Putative eukaryotic translation initiation factor 4 gammaAGI-01101.472
Cp1085 ------TP Ciclev10025935mscaffold_723900102391658J C_unshiu_00025:mRNA_42.1C_unshiu_00025337060338142Putative geranylgeranyl pyrophosphate synthase 3-likeAGI-0270.082
Af1109 ------J C_unshiu_00194:mRNA_16.1C_unshiu_001949641598120Putative H/ACA ribonucleoprotein complex subunit 1-like protein 1AGI-0548.590
Gn0100 ------TP Ciclev10028245mscaffold_81925962319261508J C_unshiu_00814:mRNA_2.1C_unshiu_008141398715768Putative lycopene beta cyclaseAGI-0844.669
Tf0303 ------SI082TP Ciclev10030491mscaffold_463251806334300J C_unshiu_00210:mRNA_10.1C_unshiu_002105214860690Putative lysine-specific demethylase ELF6
Af2893 ------TP Ciclev10025356mscaffold_717394431743149J C_unshiu_01334:mRNA_6.1C_unshiu_013342586329359Putative mitochondrial chaperone BCS1-BAGI-0273.779
Tf0103 ------TP Ciclev10002094mscaffold_5354416357301J C_unshiu_01920:mRNA_2.1C_unshiu_019201014012134Putative NAC domain-containing protein 94AGI-0993.685
Ov0315 ULess informative for main cultivars ------TP Ciclev10013467mscaffold_62343037523436161J C_unshiu_00098:mRNA_32.2C_unshiu_00098207615213748Putative nuclear matrix constituent protein 1-like proteinKmG-047.092
Tf0212 ------SI196TP Ciclev10030538mscaffold_41981680019825304J C_unshiu_00535:mRNA_20.1C_unshiu_00535166525174142Putative nuclear matrix constituent protein 1-like proteinAGI-0756.586
Fb0389 ------TP Ciclev10014121mscaffold_22517966825188103J C_unshiu_00087:mRNA_31.1C_unshiu_00087209767218135Putative pesticidal crystal cry8Ba-likeAGI-0856.850
Tf0319 ------SI152TP Ciclev10026319mscaffold_768726666877291J C_unshiu_00166:mRNA_10.1C_unshiu_001667878083374Putative PHD finger protein ALFIN-LIKE 4-likeAGI-0244.258
Al0313 AAvailable marker O---OOTP Ciclev10011272mscaffold_62396603923969583J C_unshiu_00133:mRNA_4.2C_unshiu_001332248526003Putative phosphatidylinositol 4-kinase type 2-betaAGI-0438.152KmG-049.748
Wy0048Wy0048.k ------TP Ciclev10010999mscaffold_61990023519904192J C_unshiu_00043:mRNA_54.1C_unshiu_00043424252427984Putative receptor protein kinase TMK1AGI-0463.371NAT-0421.157
Af1700 ------TP Ciclev10004322mscaffold_91850229318505531J C_unshiu_00138:mRNA_34.1C_unshiu_00138182719186200Putative receptor protein kinase TMK1AGI-0354.060
Al0302 AAvailable marker -O--OOSI090,SI311TP Ciclev10004372mscaffold_92507369325080376J C_unshiu_00119:mRNA_33.1C_unshiu_00119346131352710Putative seed imbibition proteinAGI-0348.375KmG-03218.339JtR-033NAT-033.773RP-0336.113
Bf0019 ------TP Ciclev10028586mscaffold_8232123235806J C_unshiu_00376:mRNA_8.1C_unshiu_003767247476027Putative serine/threonine-protein kinase Cx32RP-04
Tf0004 ------SI219,SI330TP Ciclev10014045mscaffold_23307482133084014J C_unshiu_00153:mRNA_7.1C_unshiu_001536640675053Putative SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 2AGI-0632.312
Tf0411 OOthers O-----TP Ciclev10020263mscaffold_33811119138116265J C_unshiu_00523:mRNA_15.1C_unshiu_00523100297104594Putative transcription factor PosF21AGI-0548.613
Edb003 OOthers ------TP Ciclev10032012mscaffold_41604632216048971J C_unshiu_01260:mRNA_4.1C_unshiu_012603013632342Putative WRKY transcription factor 28AGI-0741.830
Gmom29 ------TP Ciclev10000654mscaffold_51267741412680761J C_unshiu_00578:mRNA_7.1C_unshiu_005787744680730Putative WRKY transcription factor 33AGI-0222.436
Tf0010 ------TP Ciclev10021038mscaffold_310542571056078J C_unshiu_00609:mRNA_18.1C_unshiu_006097788379313Putative WRKY transcription factor 41AGI-05
Tf0321 ------SI003TP Ciclev10032283mscaffold_42434164224346244J C_unshiu_00001:mRNA_213.1C_unshiu_0000113581151363266Putative WRKY transcription factor 57
Cp0093 Bno homozygous cultivar with minor allele O-----TP Ciclev10032427mscaffold_42359643423599906J C_unshiu_00001:mRNA_89.1C_unshiu_00001587949598235Putative WRKY transcription factor 72AGI-0774.537
Tf0148 AAvailable marker O---OOSI119TP Ciclev10032816mscaffold_42099870821001535J C_unshiu_00010:mRNA_116.1C_unshiu_00010869802872410Putative WRKY transcription factor 75AGI-0764.812
Lp0103 OOthers ------TP Ciclev10012274mscaffold_61639330916395378J C_unshiu_00332:mRNA_15.1C_unshiu_00332142648144673Pyridoxal biosynthesis lyase pdxSRP-0411.437
Bf0164 ULess informative for main cultivars O-----SI263TP Ciclev10000615mscaffold_54306044243066562J C_unshiu_00370:mRNA_39.2C_unshiu_00370217887223455Pyrophosphate-dependent phosphofructokinase alpha subunitAGI-0921.471NAT-09111.981RP-0994.065
Lp0237Lp0237.k ------TP Ciclev10007524mscaffold_12598780325992258J C_unshiu_00066:mRNA_23.1C_unshiu_00066112710117006Pyrophosphate-energized vacuolar membrane proton pumpAGI-0129.815KmG-0113.444JtR-01S57.629NAT-01S8.967
Ov0419 AAvailable marker -----OTP Ciclev10011593mscaffold_61670917916712039J C_unshiu_00008:mRNA_31.2C_unshiu_00008178086180944Pyruvate decarboxylaseRP-0411.143
Bf1186 ------SI245TP Ciclev10012047mscaffold_62191243821917736J C_unshiu_00079:mRNA_40.1C_unshiu_00079278696283911R3H domain-containing protein 2
Af1100 ------TP Ciclev10026703mscaffold_71085348710855215J C_unshiu_00451:mRNA_17.1C_unshiu_00451120744122474Ran BP2/NZF zinc finger-like superfamily protein isoform 1AGI-0213.326
Ov0105 MDisagree by Marco analysis O-----SI126,SI278TP Ciclev10031362mscaffold_42355285623556415J C_unshiu_00001:mRNA_81.1C_unshiu_00001545345548897Receptor-like kinase plantNAT-0736.023RP-07
Ov0105.2Ov0106.2 ------TP Ciclev10031362mscaffold_42355285623556415J C_unshiu_00001:mRNA_81.1C_unshiu_00001545345548897Receptor-like kinase plantAGI-0774.064KmG-0715.390JtR-075.947
Ks9010 AAvailable marker ----OOTP Ciclev10007188mscaffold_92946086629463385J C_unshiu_00056:mRNA_15.1C_unshiu_00056116304118823Receptor-like protein kinase HERK 1AGI-0462.499KmG-0439.019
Tf0238 ------SI114TP Ciclev10026387mscaffold_7551893553909J C_unshiu_01559:mRNA_5.1C_unshiu_015592403534006Receptor-like protein kinase THESEUS 1
Tf0112 O-----TP Ciclev10031118mscaffold_41701458217026325J C_unshiu_00225:mRNA_9.1C_unshiu_002253709044898Regulation of nuclear pre-mRNA domain-containing protein 1BAGI-0743.014
Fb0138 ------TP Ciclev10000092mscaffold_53849902438504883J C_unshiu_00183:mRNA_7.1C_unshiu_001838654094072Regulator of chromosome condensation (RCC1) family with FYVEzinc finger domainAGI-0943.862KmG-0954.172SA-0950.659
Al0625 AAvailable marker O---OOSI329J C_unshiu_00139:mRNA_45.1C_unshiu_00139346138349862Regulator of chromosome condensation family proteinAGI-0466.455RP-0423.717
Af1036 O-----TP Ciclev10021080mscaffold_370168317019863J C_unshiu_00425:mRNA_11.1C_unshiu_004256559668473Replication factor C subunit 2AGI-0543.118
Edp005 HDisagree on Clementine haploid genotype ------TP Ciclev10000211mscaffold_52120399421212595J C_unshiu_00020:mRNA_80.1C_unshiu_00020742433758888Retinoblastoma protein 2AGI-09105.195RP-0923.442
Cp1628 ------TP Ciclev10021963mscaffold_31282291112825620J C_unshiu_02666:mRNA_2.1C_unshiu_026661010412687Rhodanese/cell cycle control phosphatase superfamily proteinAGI-0541.272
Cp2237 AAvailable marker ----OOTP Ciclev10028314mscaffold_81319004113194829J C_unshiu_01736:mRNA_2.1C_unshiu_017361898623543Riboflavin biosynthesis protein ribBA, chloroplasticAGI-0855.965
Cp1267 MDisagree by Marco analysis ------TP Ciclev10011346mscaffold_679837887991526J C_unshiu_02325:mRNA_1.1C_unshiu_0232516429359Riboflavin biosynthesis protein RibDAGI-0894.382
Af1043 ------TP Ciclev10026060mscaffold_72004993620052008J C_unshiu_00519:mRNA_19.1C_unshiu_00519110187111261Ribonucleoside-diphosphate reductase subunit M2AGI-0244.231
Cp0062 O-----TP Ciclev10032378mscaffold_41610719916109587J C_unshiu_01642:mRNA_2.1C_unshiu_016421631620085Ribose-phosphate diphosphokinaseAGI-0745.716
Cp0233 ------TP Ciclev10031694mscaffold_41121087911216325J C_unshiu_00061:mRNA_64.1C_unshiu_00061550725556167Ribose-phosphate pyrophosphokinase 4AGI-0737.826
Al0234 OOthers ------TP Ciclev10005909mscaffold_913729721374927J C_unshiu_00369:mRNA_20.1C_unshiu_003697403474546Ribosomal protein L19KmG-0316.974NAT-0347.094RP-033.219
Af1396 ------TP Ciclev10022545mscaffold_349206624923421J C_unshiu_00520:mRNA_16.2C_unshiu_00520166824167867Ribosomal protein L19 family proteinAGI-0528.041
Ov0508Ov0507.2 ------SI322TP Ciclev10031860mscaffold_4642157644823J C_unshiu_00202:mRNA_16.4C_unshiu_00202127322129988Ribulose bisphosphate carboxylase/oxygenase activase, chloroplasticAGI-078.291JtR-0776.060
Cp0870 Bno homozygous cultivar with minor allele ------SI338TP Ciclev10031974mscaffold_4642157644823J C_unshiu_00202:mRNA_16.4C_unshiu_00202127322129988Ribulose bisphosphate carboxylase/oxygenase activase, chloroplasticAGI-075.180
Tf0163 AAvailable marker O---OOTP Ciclev10010423mscaffold_12674082226744016J C_unshiu_00105:mRNA_35.1C_unshiu_00105316978320206RING/FYVE/PHD zinc finger superfamily protein, putative isoform 1AGI-0131.240
Bf0146 O-----TP Ciclev10022345mscaffold_34852882048531316J C_unshiu_00026:mRNA_37.1C_unshiu_00026280361282836RRNA-processing protein FCF1AGI-0578.274
Bf0193 O-----SI100,SI109TP Ciclev10014811mscaffold_23597057735973973J C_unshiu_00077:mRNA_15.2C_unshiu_00077102078105358Scarecrow-like transcription factor PAT1RP-06.214.065
Tf0330 ------SI064,SI139TP Ciclev10014811mscaffold_23597057735973973J C_unshiu_00077:mRNA_15.2C_unshiu_00077102078105358Scarecrow-like transcription factor PAT1AGI-0613.470
Lg2005 ------TP Ciclev10002751mscaffold_54218771442189727J C_unshiu_00192:mRNA_45.1C_unshiu_00192319592321612SCF ubiquitin ligase, SKP1 componentAGI-0934.172
Cp1996 MDisagree by Marco analysis ------TP Ciclev10002770mscaffold_52946360429466318J C_unshiu_01370:mRNA_6.1C_unshiu_013704657449106Sec-independent protein translocase protein TatAAGI-0986.532RP-0933.820
Bf0226 MDisagree by Marco analysis O-----TP Ciclev10008869mscaffold_12365478523658857J C_unshiu_00175:mRNA_30.1C_unshiu_00175321759325671SEC14 cytosolic factorAGI-0863.341
Ov0412 OOthers ----OOSI050,SI222TP Ciclev10015053mscaffold_23103608831038222J C_unshiu_00143:mRNA_11.1C_unshiu_001436747569537SEC14 cytosolic factor family proteinAGI-0642.110KmG-0639.373JtR-06S15.372
Bf0229 ------SI253TP Ciclev10004848mscaffold_91724221817245901J C_unshiu_00122:mRNA_16.1C_unshiu_00122118693122329Selenium binding proteinAGI-0346.274RP-0337.885
Lp0102 MDisagree by Marco analysis O-----SI080,SI319,SI360,SI378TP Ciclev10020840mscaffold_33064873230651259J C_unshiu_00759:mRNA_1.1C_unshiu_007599173353Senescence-related gene 1AGI-0542.737KmG-05S41.895JtR-0528.682NAT-0537.917RP-0551.879
Bf0161 ------SI089,SI348TP Ciclev10015189mscaffold_266580036660691J C_unshiu_00072:mRNA_47.1C_unshiu_00072364436365812Sequence-specific DNA binding transcription factorsAGI-06144.849
Al0228 ------TP Ciclev10009018mscaffold_12620606326208427J C_unshiu_00315:mRNA_25.1C_unshiu_00315212819220361Serine/threonine-protein kinase HT1JtR-0347.115
Tf0199 ------SI023,SI157TP Ciclev10000697mscaffold_53099481230999834J C_unshiu_00422:mRNA_12.1C_unshiu_00422116754121159Serine/threonine-protein kinase isoform 2
Af3017 ------TP Ciclev10031492mscaffold_42440184124406470J C_unshiu_00001:mRNA_224.1C_unshiu_0000114157781420221Serine/threonine-protein kinase PBS1AGI-0783.217
Af1377 ------TP Ciclev10001143mscaffold_53278033932783349J C_unshiu_00224:mRNA_50.1C_unshiu_00224297837300694Seryl-tRNA synthetase (Serin-tRNA ligase)AGI-0970.624
Cp1084 OOthers ------J C_unshiu_01090:mRNA_3.1C_unshiu_010902308426817Sesquiterpene synthaseAGI-0844.577
Ov0325 ------TP Ciclev10016692mscaffold_23518059435182774J C_unshiu_00048:mRNA_54.1C_unshiu_00048359734361893SGS domain-containing proteinNAT-08248.374
Al0231 ------TP Ciclev10033829mscaffold_41622377116226683J C_unshiu_00086:mRNA_13.1C_unshiu_0008699963109609ShatterproofRP-06.17.272
Edw001 AAvailable marker -----OTP Ciclev10033829mscaffold_41622377116226683J C_unshiu_00086:mRNA_13.1C_unshiu_0008699963109609Shatterproof
Af1437 ------TP Ciclev10002114mscaffold_514743961479079J C_unshiu_00060:mRNA_37.1C_unshiu_00060309328313345Short-chain alcohol dehydrogenaseAGI-0992.804
Tf0167 ------SI230,SI241,SI247TP Ciclev10030998mscaffold_41714335017147918J C_unshiu_00478:mRNA_2.1C_unshiu_004781923227824Sigma factorAGI-0746.244
Tf0143 ------SI127TP Ciclev10004758mscaffold_93004045730044615J C_unshiu_00134:mRNA_22.1C_unshiu_00134203848206784Sigma factorAGI-0368.846
Ov0512 OOthers O-----TP Ciclev10006241mscaffold_92719850827199642J C_unshiu_00433:mRNA_19.1C_unshiu_00433116730118286Small heat shock proteinAGI-0340.361KmG-03225.743JtR-031NAT-03
If0203 MDisagree by Marco analysis ------TP Ciclev10022993mscaffold_34222922442231230J C_unshiu_00322:mRNA_21.1C_unshiu_00322121122123131Small ubiquitin-related modifierAGI-0551.293KmG-05S67.257JtR-0543.446
Al0207 OOthers ------TP Ciclev10020027mscaffold_343668024370111J C_unshiu_00186:mRNA_18.1C_unshiu_00186178635181547SNF1-related protein kinase regulatory subunit gamma-1AGI-0984.537JtR-09S9.929
Bf0195 ------SI369TP Ciclev10000780mscaffold_53106923731075092J C_unshiu_00422:mRNA_5.1C_unshiu_004223532240511Sodium/hydrogen exchanger 2AGI-0974.076
Cp1144 OOthers ------TP Ciclev10028086mscaffold_826499912655756J C_unshiu_00152:mRNA_43.1C_unshiu_00152288550294174Sodium:hydrogen antiporter 1 isoform 1AGI-0870.995
Cp0532 ------TP Ciclev10020319mscaffold_33039381130398972J C_unshiu_00501:mRNA_15.1C_unshiu_00501133280137847Solanesyl diphosphate synthaseAGI-0542.168
Bf0028 DDominant marker O--O--SI001TP Ciclev10014319mscaffold_23535477635363026J C_unshiu_00048:mRNA_32.1C_unshiu_00048179733188796Soluble starch synthase III-1AGI-0617.966
Al0247 T3 or more alleleic model O-----TP Ciclev10029281mscaffold_822278272230752J C_unshiu_00024:mRNA_15.1C_unshiu_00024104182106823Somatic embryogenesis receptor kinase 1AGI-0877.316KmG-0891.101NAT-08273.850
Gn0021 AAvailable marker ----OOTP Ciclev10000597mscaffold_53963011139635609J C_unshiu_01033:mRNA_10.1C_unshiu_010334779953166Somatic embryogenesis receptor kinase 1AGI-0942.621KmG-0968.220JtR-09S97.453NAT-0983.381
Ov0312 ------TP Ciclev10018858mscaffold_313441921349935J C_unshiu_00541:mRNA_19.1C_unshiu_00541170170175878SpastinSA-098.022
Fb0322 O-----TP Ciclev10030532mscaffold_432497103254808J C_unshiu_00342:mRNA_35.1C_unshiu_00342217525222590Splicing factor 3B subunit 3AGI-0714.580JtR-0764.384RP-0747.636
Wy0063Wy0063.em ------TP Ciclev10021336mscaffold_32939509429402560J C_unshiu_00549:mRNA_8.1C_unshiu_005498314990542Splicing regulatory glutamine/lysine-rich protein 1AGI-0133.445
Wy0064Wy0064.em ------TP Ciclev10021336mscaffold_32939509429402560J C_unshiu_00549:mRNA_8.1C_unshiu_005498314990542Splicing regulatory glutamine/lysine-rich protein 1
Al0637 AAvailable marker O----OSI353TP Ciclev10019147mscaffold_329396202941934J C_unshiu_00092:mRNA_51.1C_unshiu_00092363486365791Spotted leaf protein, putative
Bf0115 O-----SI054,SI295TP Ciclev10029066mscaffold_863172056322458J C_unshiu_00484:mRNA_11.3C_unshiu_004844821654250Squalene synthaseAGI-0858.587NAT-08117.717
Tf0140 ------TP Ciclev10004457mscaffold_9225971232459J C_unshiu_00007:mRNA_144.1C_unshiu_00007929895935477Squamosa promoter-binding-like protein 1AGI-039.830
Tf0267 AAvailable marker O---OOTP Ciclev10031834mscaffold_41257152612575185J C_unshiu_00847:mRNA_8.1C_unshiu_008474865152296Squamosa promoter-binding-like protein 13AGI-0737.800
Gn0047 ------TP Ciclev10011938mscaffold_61874118118744166J C_unshiu_00139:mRNA_23.1C_unshiu_00139204645207518Squamosa promoter-binding-like protein 9KmG-0448.092
Cp1585 MDisagree by Marco analysis ------TP Ciclev10021651mscaffold_366029946605239J C_unshiu_00412:mRNA_10.1C_unshiu_004128030082171Stay green protein
Tf0083 ------SI129TP Ciclev10021651mscaffold_366029946605239J C_unshiu_00412:mRNA_10.1C_unshiu_004128030082171Stay green proteinAGI-0537.103
Tf0420 AAvailable marker OOO-OOTP Ciclev10022018mscaffold_366029946605239J C_unshiu_00412:mRNA_10.1C_unshiu_004128030082171Stay green proteinAGI-0537.103
Al0513 OOthers ------TP Ciclev10009222mscaffold_180461818049306J C_unshiu_00191:mRNA_21.1C_unshiu_00191243988246458Stem 28 kDa glycoproteinAGI-0160.031KmG-0141.591
Ov0015 OOthers O-----SI304TP Ciclev10026223mscaffold_782550468256442J C_unshiu_02827:mRNA_2.1C_unshiu_028271598617224Stem 28 kDa glycoproteinAGI-0234.494KmG-0235.126JtR-0219.319
Af1508 ------TP Ciclev10011580mscaffold_62198304421991500J C_unshiu_00079:mRNA_48.1C_unshiu_00079328854336213Stomatal closure-related actin-binding protein 3AGI-041.342
Vt0001 AAvailable marker ----OOTP Ciclev10014290mscaffold_23562493535628855J C_unshiu_00337:mRNA_2.1C_unshiu_0033726846536Subtilase family proteinAGI-0616.327KmG-0668.041
Vt0011 AAvailable marker ----OOTP Ciclev10021162mscaffold_31298441112986574J C_unshiu_00337:mRNA_2.1C_unshiu_0033726846536Subtilase family proteinAGI-0541.306JtR-0537.780
Al0422 T3 or more alleleic model O-----TP Ciclev10013176mscaffold_61449547314496662J C_unshiu_00032:mRNA_34.1C_unshiu_00032369423370581Subtilisin inhibitor 1, putativeAGI-0893.695
Gn0017 ------TP Ciclev10007311mscaffold_12588082425887976J C_unshiu_00005:mRNA_103.1C_unshiu_00005841899847089Sucrose phosphate synthaseAGI-0130.293KmG-0117.862
Gn0011 ------TP Ciclev10007488mscaffold_12481453924819264J C_unshiu_00341:mRNA_12.1C_unshiu_003418518289905Sucrose synthaseKmG-0121.459
Gn0012 ------TP Ciclev10018889mscaffold_34601123846017249J C_unshiu_00139:mRNA_16.1C_unshiu_00139135708141900Sucrose synthaseKmG-05S78.527
Bf0123 ------SI141TP Ciclev10011473mscaffold_61580386415809998J C_unshiu_00284:mRNA_13.1C_unshiu_00284114758120828Sulfoquinovosyldiacylglycerol 2AGI-0892.221RP-0410.226
Bf0411