Citrus CAPS Marker Database

Locus name: Tf0301

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 700
Comment on PCR:
F-primer: GGCGTCTCATCTCCTAACA
R-primer: CAAGAATTCGCAGTCAACCTC

EST info

EST Accession number 1: CK934342
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TCAAGAAAGAAGCTGAGACTTTCTAAAGATCAGTCAGCCATTCTTGAAGAGAGCTTCAAA
GAGCACAACACTCTCAACCCAGTATGTATTTTGCTTCTCAGTTTCTGT
STS source:
STS Forward / Reverse: Foward read
STS:
AAGCTGTAGTGTCCCTTTCTCAATCAATCGGTGTTTTCAGTAATTTAACTGACAAATGGG
TGGTTTTTATTATCTGCAGAAGCAAAAGTTGGCGTTGGCAAAGCAGCTTGGTCTCAGACC
TAGACAGGTGGAAGTGTGGTTCCAGAACAGAAGGGCAAGGTAAGATATTCTATCAAGATT
TTAAGGG
STS source:
STS Forward / Reverse: Reverse read

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: Ciclev10021374m
Scaffold: scaffold_3
Start: 5318874
End: 5321054

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00442:mRNA_14.1
Scaffold: C_unshiu_00442
Start: 123398
End: 125451
Gene function: Homeobox-leucine zipper protein HAT3

AGI map info (Shimada et al. 2014)

AGI LG:
AGI cM:

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: SI182
DNA sequence around SNP1:
TCAAGAAAGAAGCTGAGACTTTCTAAAGATCAGTCAGC[T/C]ATTCTTGAAGAGAGCTT
CAAAGAGCACAACACTCTCAACCCAGTA
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: