Citrus CAPS Marker Database

Locus name: Tf0020

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 1200
Comment on PCR:
F-primer: AAACGGAATACTAACGGAAAC
R-primer: CAAGCCCACATCCTAAATC

EST info

EST Accession number 1: DC887181
EST Accession number 2:

sequence-tagged site (STS seq)

STS:

AAGCTGACGGCTGAACAAGCTGAGCTTCTTGAGATGCATTTTGGCAACGAACACAAGCTT
GAATCTGACAGAAAAGACAAGCTCGCTGCTGAGCTCGGACTCGATCCTCGTCAAGTGGCC
GTGTGGTTTCAGAACCGGAGGGCTCGTGATAAGACTAAGAAGATTGAGGAGACCTACGCT
ACCTTGAAGACCGCTCATGAAAATGTCGTCGTGGAGAAAACCCGACTCGAGTCTGAGGTA
TATTAGCTTTCTTGTTTCTAATTATAATGTTAATTCACATCAGCGATTTATTTATTTGTT
TGTTTAATTCAATATTGACACATTTCATTTTCTTACTCAACATGCAAGTAGTATACCTTG
CCGCTAACCATTCCCGCAATTTATGACTGACTTTGAGTTATTTTAAAGAAAATGAATCTG
AGTTGAAACGTCTTAATTGTTTCTTATCCTCTATAAAAGGACAAAAGTGCCAAAGATATT
TGATTGTGAATGAGCTCTGGGCTCGAAGAAAGCCATCCCATGCTTATTTATTTTTAACTT
TTTTTTTAATAAATATTTATTTTTAACTAAGAACAGGATACTACTTTTATACTTGCCACC
TCACTTTTGACGGCAAAAGCCACCAAAATGATACAGGTTCATAACTTGGTATTGATTGAT
AATAATAATAACACGGTGAGCATTACGTTAGTCTTTACAACGTTGTTAAAAGTGGTTAGT
TTTGGGCTTGATTATGGCCTACCCTGGGGAGCAGCAAAAAGAAGGAACTTACGCCCACGT
GACCTTGGAAACTTTTTTTCTTTTCAGCAACTTCCTGTTCTTGATATTGTTTAACAAGCG
ATTTGACTTGATTTGCAGGTGGCAACGCTGAAAGAGAAGCTTTCAGTTGCCGAGAAGGAG
ATTAAGAAAATGTCAGAGCTCATTGAAGGGATTTCACTCAATAATCCGAGTGCCACGATC
CCAACGGACATGGACACCGTGGACTCACCGTTTACCCTGGACCCTTTTGCTGGTAATCTT
GGGTGGTTTGATTATGAGGATCTCCTCTACTTGCTTCAACAGAATTACATTTCTGCTGCC
GAGTGGCTCTTACTCCACACCTATTAATCCATCAAGTGATC

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

Target on C. clementina (v1.0)

Transcript ID: Ciclev10026414m
Scaffold: scaffold_7
Start: 2289455
End: 2291216

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00025:mRNA_31.1
Scaffold: C_unshiu_00025
Start: 258446
End: 260200
Gene function: Homeobox leucine zipper protein

AGI map info (Shimada et al. 2014)

AGI LG: AGI-02
AGI cM: 71.294

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: SI154
DNA sequence around SNP1:

GGATACTACTTTTATACTTGCCACCTCACTTTTGACGGCAAAAGCCACCAAAATGATACA
[T/G]GTTCATAACTTGGTATTGATTGATAATAATAATAACACGGTGAGCATTACGTTAG
TCTTT

SNP2:
DNA sequence around SNP2:

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: