Citrus CAPS Marker Database

Locus name: Tf0049


CAPS PCR info

PCR Anneal-Temp (℃) / Method: 62
Main product (bp): 1400
Comment on PCR:
F-primer: TCCACCAACAGCCAAGTACGA
R-primer: TTCTTTGCGGAAGTAGTAGAC

EST info

EST Accession number 1: BQ623105
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TCTGATCTTTTCTGGGCTACTCTCGAAGCATTTCACAAGTCTTTTGGTGACAAGTTCAAG
TTTGTGACTTTTGCTTTTCTTCATGTTTTCTTTTTCCCCCTCCGTAAATTTTGTTCCTTT
ATGATTTTTGGCTCATGTCTGCTGAACAAATTTTGAGCTTTGACACTGAGAGCTTTATGT
TTTTAGTAATTTTTTTTACCTTTTCTAAGTAATGTTGGATGATTGGTGGTCTGTTCTTAA
TTTATTTATGTTAGGCACCATTAACTTTTTTTATGCTTGCCATGGATGCACAACGGGGAT
TGCCATTTGACTTATGGCTCACTGATATGGCAGTGGTTCAGATCTCAATGCTTTGATACC
GTGTAACTAATTGATATAATTACAGCTCGACAGTTTCTTCAAACTAGTTGACAGTTGGAG
ACAAGAATGAACATCCTGTTAGATTAGTTGGAATCTGGTTTGATAAGCTTGTTCAATGTA
ACTGCATGATTGGCCTGCCGATATTAATAAGTGACTTGCTGGTCTTATTAAGGTTTCAAT
GTTTTGGTTCTTTGTATTTAAACACCATTATGCAAAGTTGCAAACTATGAGACCTGTCTG
CCTTCTCTTTATTTGGCTAAAACTTCATCCGGTGTGACGTGGAGCATAGAAGTATTATAT
ACATTTACTTTTGAGGTCATTATGTTTCTTGCTTGCTTTTATTTCAATCGACTCCTTTCA
TAATTCCCTTTGTTCCTTTTTCCTTCTTTTCCTCTAGGTGATTGAATGCCTTTACATGAA
CTCCTTTCATTATCCTTTTCTGCTGCTAGTCCACCAATAGAGCTGACCTTCTTAATAAAA
CTTAGAATAAGAAAAACGAGTACGATTGACATTCCTTCAATTTCTTTTTCCTTTGAATAG
GGTTCCTACTGTAGGAGGAAAGGCGCTCGATCTGCATCGCCTTTTTGTGGAGGTGACATC
TCGTGGTGGTCTTGGAAAGGTACAAGCTATTGCCTTGTTTTAAATGAGGAGAATGGTGTG
TGCAACATTCCACTCGTAAATCTGTTACAAAACCTAGCCTAACGATAATGGTGACAGTCT
CATATTCCCCGGAGATGATTAAAGGATCATGTCAAGTATTTTTTTCTCCTATGACCTGCA
TATCTTGATCTTTTAACAAACTTCCAAGGATATTGTCACAGCTAATTTTTGAGGC
ATGACTTTAACATTTTTCCTGCATTTTCCGATGACATGGTTTGTCTTGGTTATGTTTCAT
CTAGTCCACGATTTGATAATGATTGCAACTGGGATGATTGTTGGGGCATCTTCCATAGAT
TAATTAATTGTCTTGAAATGGTTTTAGGTAATTAGAGATCGTAGATGGAAGGAAGTGGTT
GTGGTCTTCAACTTTCCCACAACGATTACCAGTGCATCATTTGTATTACGGAAGTATATC
TCTCATTACTTTAC
STS source:
STS Forward / Reverse:

Experiments: Restriction fragment profile

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

Experiments: CAPS pattern of hybrid cultivar


Experiments: CAPS pattern of Citrus collection


Experiments: Segregation pattern

Population name: A255 (Okitsu46gou) x G434 (Kankitsu Chuukanbohon Nou5gou)
Restriction enzyme: Dra1
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: 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

Target on C. clementina (v1.0)

Transcript ID: Ciclev10008919m
Scaffold: scaffold_1
Start: 24273993
End: 24277800

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00047:mRNA_33.1
Scaffold: C_unshiu_00047
Start: 212549
End: 221653
Gene function: WD domain protein-like

AGI map info (Shimada et al. 2014)

AGI LG: AGI-01
AGI cM: 26.841

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: SI328
DNA sequence around SNP1:
TCTGATCTTTTCTGGGCTACTCTCGAAGCATTTCACAAGTCTTTTGGTGACAA[A/G]TT
CAAGTTTGTGACTTTTGCTTTTCTTCATGTTTTCTTTTTCCCCCTCCGTAAATTTTGT
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: