Citrus CAPS Marker Database

Locus name: Tf0059

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 62
Main product (bp): 1800
Comment on PCR:
F-primer: CTTAAGTGGCAGCAGTAGTTG
R-primer: CCTTCCAGCCCTTAGA

EST info

EST Accession number 1: BQ624977
EST Accession number 2:

sequence-tagged site (STS seq)

STS:

TCGCCAGAGGAGTGGTATATAGTCCTAAAATTAGCTTAATGGAATTGATTTGTGCAACTT
TCAGTTCTATTATGGGTACATATTCTTTGAGGTTGATTTACATAACAAAACTGAACAGGG
AGATGAATGTGGAGGTCTTGCAGAATTTGAGTCAGGCTCATCTGTTAATTACTCATTTAG
TAATTTCTCATTCAAGGTAGGTTTTCCAGTCTTTTTTGTTAATTTTTCATTACATCTGTT
TACTAACTGCTTGCTCAACACAATCTGTTATAAACTTTCTTCATTGTTTTCTTATAAGAT
CAGAGAATAAATAGATTCATATAAGAAAAAAATAATATATATATATTTTTTTTTCTTTAC
AAAATTGCTTTTCTATTTTATGAGTTTCACTACGACCCGCTATGAGTACTTGACTGTATG
ATTTTATTACCATTAAATATATTAAAATGTAAAAAATTATCGGATCTTCTATGGCATTAT
TTGTTGGTTGCTAGTCAATTATTTGTTATCTTCTTTTGGATTAAATTGCTCTGTTTCTTG
TCGTTAAAACAGAGGAAAATAAAGGGCTAATTTTATTTAATTAGCACATAAAGGTTAATG
CGAGACTATTTGTACCCATGAATATAATACTTTACTCGCCATTCTTTTATAAAATATGTT
ATCACTAAGTTATCCTTAATGAAAATTACTGTTTTG

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: Ciclev10007297m
Scaffold: scaffold_1
Start: 12883722
End: 12897805

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00450:mRNA_3.1
Scaffold: C_unshiu_00450
Start: 36956
End: 58462
Gene function: AGC family Serine/Threonine kinase family protein

AGI map info (Shimada et al. 2014)

AGI LG: AGI-01
AGI cM: 56.416

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: SI101
DNA sequence around SNP1:

TTTGTTAATTTTTCATTACATCTGTTTACTAACTGCTTGCTCAACACAATCTGTTATAAA
[T/C]TTTCTTCATTGTTTTCTTATAAGATCAGAGAATAAATAGATTCATATAAGAAAAA
AATAA

SNP2:
DNA sequence around SNP2:

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: