Citrus CAPS Marker Database

Locus name: Tf0144

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 650
Comment on PCR:
F-primer: CAGAGAGTCAGGGCAATGGTT
R-primer: CTTTCTGCCACCAGCTACGC

EST info

EST Accession number 1: DC885340
EST Accession number 2: DC885341

sequence-tagged site (STS seq)

STS:
TTTTGGATTTTCTTTGTCCTGATGGAAGATCCTATAGAACAATTTCAATTCAGTAAAATG
GCTCAATCAGATAATTACTGACATAGCAGTGCAGAGGCTTTATGTCATTCATCAAATCAA
GCTAGAAAGATCCAACTGACCTGATCTGTTGTCGATCCAGGAGTTTTCAATTCTAGGTCA
GTTGTGACATTGTTAGAGTCCTCATTCTTCTCAATCTTGCTCTCCCCTGATGACTTGTTT
CCAGAATCTTCTTTAGCTGAACCTTGGGACCTACCACTTGGCTGTGCAACTGCAGATGCA
TATTGTGCGGACTGTTGTTCCACCAGTGTATTAGGAGCCATATACGGGACAAAAGTTGAA
CAGGGGTTAGGAATGACCCCAGGATTCTGATTTCCAAACATGGGGTATGGCTGCATGGGC
GGATGCATGGGTATCGCCCCAGGAGGCATC
STS source:
STS Forward / Reverse:

Experiments: Restriction fragment profile

Compared cultivars (Left, (Middle), Right): A255(Okitsu46gou)/G434(Kankitsu Chuukanbohon Nou5)
Comment:
Figure legend:
Compared cultivars (Left, (Middle), Right): Frying dragon/Hyuuganatsu
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: Ciclev10028782m
Scaffold: scaffold_8
Start: 8009000
End: 8012045

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00682:mRNA_12.1
Scaffold: C_unshiu_00682
Start: 86334
End: 89311
Gene function: Transcription factor bHLH121

AGI map info (Shimada et al. 2014)

AGI LG: AGI-08
AGI cM: 56.439

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: SI125
DNA sequence around SNP1:
TTTTGGATTTTCTTTGTCCTGATGGAAGATCCTATAGAACAATTTCA[A/T]TTCAGTAA
AATGGCTCAATCAGATAATTA
SNP2: SI189
DNA sequence around SNP2:
GCGGACTGTTGTTCCACCAGTGTATTAGGA[C/G]CCATATACGGGACAAAAGTTGAACA
GGGGTTAGGAATGACCCCAGGATTCTGATTTCCAA
SNP3: SI192
DNA sequence around SNP3:
GTTAGAGTCCTCATTCTTCTCAATCTTGCTCTCCCCTGATGACTTGTTTCCAGAATCTT[
C/G]TTTAGCTGAACCTTGGGACCTACCACTTGGCTGTGCAACTGCAGATGCATATTG
SNP4:
DNA sequence around SNP4: