Citrus CAPS Marker Database

Locus name: Fb0233

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 60
Main product (bp): 2200
Comment on PCR:
F-primer: CTAGGGCATGAAGACACTGTT
R-primer: AAGCTCAGCCAAAACCTC

EST info

EST Accession number 1: DC888160
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TGCTAAGTAACACTGACTTTCACATAAATTTAGATGCCATTTATTTTCTCTCCTCCCTCT
TTTATTCCGTAATTTGGACTTTCTTATAAATTTAGATGTCATTTATTTTATCCCTTCCCT
CTTTTATTCTGTAATTTGGTCTTGAATTGCTGAACTAAAAAGATAATATGGGAAGCAATA
AACTATAAAGATAATCTGCTCATCAATGCATGCTGATTCTTCTGCTTTACAGCAGAATGA
CCATTTCTGGATTTATGATGGGCTCTATTGTTTTCTATTATTTATGTGTAGTGCACAGGA
GTTCTGCAGTGTAGGTGATGATTCGTGCCTTATACTATGGGATGCCAGATCTGGCTCTAC
TCCAGCTGTCAAGGTCATTGTTCTTCACATCATATCTATCCATTTCTCCGTTTAGTTTTT
T
STS source:
STS Forward / Reverse: Foward read
STS:
CAAAGCTGGATTGAACCAGAATAATACAGGATTCTAGGACAGATCACCCCCAGAGTTTCC
TATTTTCTGATCTTTACTGTTGACCAAATTGGAACCTCAATTCATAACAAGGTGATCCAT
TTGTATGTTGTGCATGTGTAAGACTAAAGTCAATTTTCCTATACCTGTAGTGTGCCACCA
CCTCCAGTACTTTCACCATCGTCAGACACACTAACAATCGTCCATGGATCAGATGCATTC
CAATGGAAGTCAACAACTTTGTCTCTGAATCATATGCAAAAAAAATACTAAATAGTAAGT
GACAATCTTATGAAATTCAGCAATAAAGAAGGTTAAATGCATGACCAAAAGTTTAAATTA
TCATCTCCTATAGCTGCATTACCTATGTCCAGCATGTCGG
STS source:
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: Hae3
Comment: PCR unstable
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: Fok1
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
Population name: Kankitsu Chuukanbohon Nou8gou x Siamese Acidless
Restriction enzyme: Hae3
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
Population name: A255 (Okitsu46gou) x G434 (Kankitsu Chuukanbohon Nou5gou)
Restriction enzyme: Msp1
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
Population name: A255 (Okitsu46gou) x G434 (Kankitsu Chuukanbohon Nou5gou)
Restriction enzyme: ScrF1
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: Ciclev10025557m
Scaffold: scaffold_7
Start: 6535522
End: 6540965

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00437:mRNA_15.1
Scaffold: C_unshiu_00437
Start: 131524
End: 136642
Gene function: WD-40 repeat-containing protein MSI4

AGI map info (Shimada et al. 2014)

AGI LG: AGI-02
AGI cM: 47.382

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: SI025
DNA sequence around SNP1:
ACACTAACAATCGTCCATGGATCAGATGCATTCCAATGGAAGTCAACAACTTTGTCTCTG
[A/C]ATCATATGCAAAAAAAATACTAAATAGTAAGTGACAATCTTATGAAATTCAGCAA
TAAAG
SNP2: SI079
DNA sequence around SNP2:
GAGTTTCCTATTTTCTGATCTTTACTGTTGACCAAATTGGAACCTCAATTCATAAC[A/G
]AGGTGATCCATTTGTATGTTGTGCATGTGTAAGACTAAAGTCAATTTTCCTATACCTGT
A
SNP3: SI169
DNA sequence around SNP3:
ACTATAAAGATAATCTGCTCATCAATGC[A/C]TGCTGATTCTTCTGCTTTACAGCAGAA
TGACCATTTCTGGATTTATGATGGGCTCTATTG
SNP4:
DNA sequence around SNP4: