Citrus CAPS Marker Database

Locus name: Tf0019

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 1500
Comment on PCR:
F-primer: CACCATCGAAACGCAATAGG
R-primer: CCCGAGGATGCATGATAGAGT

EST info

EST Accession number 1: DC887091
EST Accession number 2:

sequence-tagged site (STS seq)

STS:

AGGTGCAGAAGCAAAAGGAGAAACAACCATCCTCATGGGACCAAATCAAGAACTTACTCA
CCTGTAAACAGATCGAAGGGTCAAAAGTACACGACCCAGCTGCAAAGAACGTTAATGGGT
ACTCAAGGCTTGGATCTTCTTGCAGTTCTATATGCAGTTTTAAAGACGTTGTCCATGGGA
ACACTAAAGTTGTACACAGAGCTGATAACTCGCCTGAGAGTAGCACATTAGGTCAAGAGA
CTGGGTTACTGAGTCGAAAAGCTGTAAACGGCTCATCAACTCGGTCTGCTTCCGTGTCGG
CGAGATCCAACGGTTGTCGGACGTATTCGTCATCTTCCAGAGGCATGCAATTCAGGAAAC
TTTCTGGGTGTTATGAATGTCACACCATCATTGACCCCAGCAGGTACTGTCATATTATTT
ATGATACCTAATATTTTTATATATGATATTGTTACGTCAGTAATTAAGAAAATTAATTTA
AAATTTTGAAAGATTGAAAATTTTTTAGAATTAAAGTTGAAAAAGATAAAAATGATCAGG
TTTCCATCTCCACGGACCACCATTTGCGCTTGCTCTCAATGTGGAGAGGTCTTCCCAAAG
ATTGAAAGCTTGGAACTCCATCAAGCAGTTCGCCATGCAGGTCATTTTTTTTCTCTAAAT
AAAATAAAATAGAAATAGTATAGCTACTATCACTATTATTTCTTATAGTAGTCTTGCCAA
TATGCAATCAAGAACTACATAGACTACGGTTAATTTGTCTTCTAGAAGGTTTGAAAAATT
TGATTTGAAAAGGTGTATCAGTTATCATAATCATTTTGTGCTTTGACCGGGGGCATAATT
CCCGTTAATTTTGGATTTACCGCACTAACTTTACTTACTTTTAGCCGAATCGTGCAATGG
TAACACCTCTTCTTTTGATTTTACCTTCAATGGGCCAGTTAGTACAATAATACTACAACT
GTTCCTGGCTAAACCGTAGGAATGTTAAACTGATAGGCTTTGGTGGCAGACTCTTATTGG
TAGATGACCCGTGACCCTGCCGACAAGTCGAAGTTAATGTACTTGCGTAATATTTGACGT
AAGGACTGTATTTTACAAGTTTCGATGTTGGGTGCAGTTTCGGAGCTGGGCCCGGAGGAC
TCAAGCCGCAACATCGTGGAGATAATCTTCAAATCAAGCTGGCTCAAGCAAAACAGCCCG
ATGTGCAAGATCGAACGGATATTAAAAGTCCACAACACCCAACGTACAATCCAACGGTTC
GAGGACTGCCGTGATGCAGTCAAGACACGTGCGCTCAACAGTACGAGGAAGAATCCCAGG
TGCGCTGCCGACGGAAACGAGCTCCTACGCT

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: Ciclev10001255m
Scaffold: scaffold_5
Start: 41881297
End: 41883386

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00009:mRNA_161.1
Scaffold: C_unshiu_00009
Start: 1049324
End: 1051358
Gene function: C2H2-like zinc finger protein

AGI map info (Shimada et al. 2014)

AGI LG: AGI-09
AGI cM: 34.799

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: SI056
DNA sequence around SNP1:

GCTGTAAACGGCTCATCAACTCGGTCTGCTTCCGTGTCGGCGAGATCCAACGGTTGTCGG
[A/G]CGTATTCGTCATCTTCCAGAGGCATGCAATTCAGGAAACTTTCTGGGTGTTATGA
ATGTC

SNP2: SI347
DNA sequence around SNP2:

CCCGTTAATTTTGGATTTACCGCACTAACTTTACTTACTTTTAGCCGAATCGTGCAATGG
[T/G]AACACCTCTTCTTTTGATTTTACCTTCAATGGGCCAGTTAGTACAATAATACTAC
AACTG

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: