Citrus CAPS Marker Database

Locus name: Af1003

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 800
Comment on PCR:
F-primer: CCCAACAGTGTCAACCTAAAT
R-primer: ACCGGAGAACTTGATTAC

EST info

EST Accession number 1: CX674077
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
AAAAATGGACTATAACTCTTCATGCATTGATGAGTCTCCAGCCGGGTGCATTTATTCTTT
GTAGAGCAGATCATGGAAAACCTTAGGCTTCCTGAATTCTGAGATGCACAGGGCCTGTAA
AGTAGCTCACGCATCAGAAGGTTGCTTGATCATTTCATAGAAACAAACGAATATTATGCA
TCAATAAGCTTAGGGACTGAGTGCTTAAGCGTGTGTGTGCGTGTGTGTGTGTGTGCGCGA
AAGAAATTACATTTTAGCCAATGAAATTTCAGATCATCTAGCTAGTAGCTACCTGCATTG
CAAATGCTATATGCATTAATGTAGGTTCAGACCATGGCTTCCCTATAAACTGAAGGCCAA
TAGGCAAGCCTGCCGTGTCATATCCAACCTGTCAACGACACATGACAACGGGTCAAACAA
AGATGATGCTTTGGTTTATATAGCTGGTTAATTAAAGACAA
STS source: Clementine haploid
STS Forward / Reverse: Combined sequence of both reads
STS:
GTATCAGATAGCGGGAAATTTTTTGGGATTGCCAGCAGTGACTGTTCCGGTATGATCTTA
TCGTTCCCTTGTCTTTAATTAACCAGCTATATAAACCAAAGCATCATCTTTGTTTGACCC
GTTGTCATGTGTCGTTGACAGGTTGGATATGACACGGCAGGCTTGCCTATTGGCCTTCAG
TTTATAGGGAAGCCATGGTCTGAACCTACATTAATGCATATAGCATTTGCAATGCAGGTA
GCTACTAGCTAGATGATCTGAAATTTCATTGGCTAAAATGTAATTTCTTTC
STS source: Clementine haploid
STS Forward / Reverse: Reverse read

Experiments: Restriction fragment profile

Compared cultivars (Left, (Middle), Right): A255(Okitsu46gou)/G434(Kankitsu Chuukanbohon Nou5)
Comment:
Figure legend:
Compared cultivars (Left, (Middle), Right): Frying dragon/Hyuuganatsu
Comment:
Figure legend:

Experiments: CAPS pattern of hybrid cultivar

Experiments: CAPS pattern of Citrus collection

Rsetriction enzyme: Dra1
Comment: DNA sample: New CCN
Figure legend:
CV (No.1 Top) 101 Tahiti, 100 Rangpurlime, 102 Limonia, 104 LisbonL, 99 SweetLime, 92 Hirado, 87 MGF, 85 Kinukawa, 84 Hassaku, 83 Yamamikan, 78 Natsudaidai, 58 Rokugatu, Tr Trovita, 50 WNV, 44 Tankan, 42 Iyo,
(No.1 Bottom) 39 HgNt, 36 Ujukitsu, 32 Kawabata, 30 Shunkokan, 70 Yuzu, 54 Henka, 53 Ichang lemon, 37 Kunenbo, Mg Miyagawa, 31 Yatsushiro, 27 Kabuchii, 26 Ponkan, 25 Medet. 22. Dancy, 14 Tachibana, 11 Hirakishu (26' Ohta ponkan)
(No.2 Top) 6 Cleopatra, 4 CQ, 2 Fukuremikan, FD Hiryuu, 124 Largeleaf, 125 Small leaf, 141 CTV-S, 136 Rubidoaux,
(No.2 Bottom) FD, Hassaku, Km, F1, RP94, SA, 02, 04, 05, 06, 07, 08, 09, 10, 11, 13
BDZ BenDi Zao, SO Shuto, BP Banpeiyu
Rsetriction enzyme: Hinf1
Comment: DNA sample: New CCN
Figure legend:
CV (No.1 Top) 101 Tahiti, 100 Rangpurlime, 102 Limonia, 104 LisbonL, 99 SweetLime, 92 Hirado, 87 MGF, 85 Kinukawa, 84 Hassaku, 83 Yamamikan, 78 Natsudaidai, 58 Rokugatu, Tr Trovita, 50 WNV, 44 Tankan, 42 Iyo,
(No.1 Bottom) 39 HgNt, 36 Ujukitsu, 32 Kawabata, 30 Shunkokan, 70 Yuzu, 54 Henka, 53 Ichang lemon, 37 Kunenbo, Mg Miyagawa, 31 Yatsushiro, 27 Kabuchii, 26 Ponkan, 25 Medet. 22. Dancy, 14 Tachibana, 11 Hirakishu (26' Ohta ponkan)
(No.2 Top) 6 Cleopatra, 4 CQ, 2 Fukuremikan, FD Hiryuu, 124 Largeleaf, 125 Small leaf, 141 CTV-S, 136 Rubidoaux,
(No.2 Bottom) FD, Hassaku, Km, F1, RP94, SA, 02, 04, 05, 06, 07, 08, 09, 10, 11, 13
BDZ BenDi Zao, SO Shuto, BP Banpeiyu

Experiments: Segregation pattern

Population name: A255 (Okitsu46gou) x G434 (Kankitsu Chuukanbohon Nou5gou)
Restriction enzyme: Pvu2
Comment:
Figure legend:
A: A255 (Okitu46gou), G: G434 (Kankitsu Chuukanbohon Nou5gou),
K or Km: Kiyomi, M or Mg: Miyagawa-wase, MK: Mukaku kisyu,
LE: Lee, O: Okitsu41gou, RP or RP94: Kankitsu Chukanbohon Nou6gou,
Sacd or SA: Siamese Acidless, SW: Sweet spring, T or Tr: Trovita orange,
X: meaningless

Target on C. clementina (v1.0)

Transcript ID: Ciclev10001093m
Scaffold: scaffold_5
Start: 15605852
End: 15610028

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00533:mRNA_20.1
Scaffold: C_unshiu_00533
Start: 131430
End: 141111
Gene function: Glutamyl-tRNA(Gln) amidotransferase subunit A, chloroplastic/mitochondrial

AGI map info (Shimada et al. 2014)

AGI LG: AGI-02
AGI cM: 22.436

KmMg map info (Omura et al. 2003)

KmMg LG:
KmMg cM:

JtTr map info (Omura et al. 2003)

JtTr LG:
JtTr cM:

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

Km/O41 LG:
Km/O41 cM:

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

Rp/Sa LG:
Rp/Sa cM:

CAPS genotyping (Hybrid cv/Citrus collection)

CAPS genotyping:

Cultivar identification (M: Cultivar identification manual / T: Ninomiya et al. 2015/ K: Nonaka et al. 2017)

Cultivar identification M/T/K:

SNP typing by Illumina GoldenGate assay (Fujii et al. 2013)

SNP1:
DNA sequence around SNP1:
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: