Citrus CAPS Marker Database

Locus name: Tf0167

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 1000
Comment on PCR:
F-primer: AGGTTCTACTAGCCGGAGA
R-primer: ATTCATACCAGCCCCTTGATA

EST info

EST Accession number 1: DC890115
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TCCTTTGAGGTACTTAAGAGCAATTACCAGTAGTTCCAGGCTTCTGACTGCCAATGAAGA
AATGCAGTTGTCAGCAGGAATACAGGTGTGACATACATACTAGTTATTTTGATGTTTTTG
AAGGAAGCAAGTCCTTTGGAGTTACTAATTAGTAGAAATTGTTATTTACCTTATTGTGAT
AAGAATCTATCCAGATGAAAGCCATTAGATATAACAAATGACTTTATGAGCCTTTGAAAA
TGAAGCTGGTCCATCCTGAGATTGCACTGTTTGGTACACTCTAATCATAGCTGATTGGTA
TTGTTTCAATGCTTTAGAGTTGATTGCATTCCAGATAGATACTAGCTGACATTAGGTAAG
TAAAAAAATGAAAGAGATGTCATGATGCGTCTGGATCTGTATGTGTATGGCATATAAGAG
CTACTAGTACCAGTTTTGTCATATTTATACTTGACAGTTACTGGTAACTAATGACATTGA
AGTGAAAAC
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: Ciclev10030998m
Scaffold: scaffold_4
Start: 17143350
End: 17147918

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00478:mRNA_2.1
Scaffold: C_unshiu_00478
Start: 19232
End: 27824
Gene function: Sigma factor

AGI map info (Shimada et al. 2014)

AGI LG: AGI-07
AGI cM: 46.244

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: SI230
DNA sequence around SNP1:
AAAAAAATGAAAGAGATGTCATGATGC[A/G]TCTGGATCTGTATGTGTATGGCATATAA
GAGCTACTAGTACCAGTTTTGTCATATTTATA
SNP2: SI241
DNA sequence around SNP2:
TACCAGTAGTTCCAGGCTTCT[C/G]ACTGCCAATGAAGAAATGCAGTTGTCAGCAGGAA
TACAGGTGTGACATACATACTAGTTA
SNP3: SI247
DNA sequence around SNP3:
GAAAGCCATTAGATATAACAAATGACTTTAT[A/G]AGCCTTTGAAAATGAAGCTGGTCC
ATCCTGAGATTGCACTGTTTGGTACACTCTAATCAT
SNP4:
DNA sequence around SNP4: