Citrus CAPS Marker Database

Locus name: Tf0085

CAPS PCR info

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

EST info

EST Accession number 1: CD573622
EST Accession number 2:

sequence-tagged site (STS seq)

STS:

CGTTTTTTCTCTCCATTCCTTCATGAACTATTAGCTTAACAGCAACATGGGAATTAGGAT
TTCAATAAATAAGAAGTAAGACGGATGCCAATTATTTGAGAAGCTGACATATTGAGTACC
TCATGTGGAAATCAGTTCCTACATGCTTTATCTTCCCTCTGATTGGATATGGTGATATTT
TTCTGATGTTTTAACTCTTTGGATGTTTCCAGTGTGTGAGAAAGTGGAAAGCAAGGGAAG
AACTACATACAATGAGGTAGGTGGCTTCTTGAAGTCGAAGTTATTATAATGATTCTGCCA
AAGTTAATTCTTGTGAGTTCTAGTTCTTTTATATAATTGATCCATTCTAGTGTGTGGTGT
CCTTGAGAATGCCTTGACTTCCTGAAGTGATTACAGCAGACCTGTGCGGATATTATCTCC
ATGCCTTTGTGCTGATCCATATTTTTGTTATTGGTAAAACAACCAAAATTATCAACAAAA
GGTATGGGATTTAAGGCCAGAACTCCATCAGCTAAAAAATATTTTGGTGTTTTTTAGGTC
TTTTAGAGTCTTGATCTTGCTTTTCAAAAATGTTTGATGGGGTATGGATAGACACACTGA
GGTGAGGCAATTGCAATGACTTTAGCCACTTCTCACATCAGGGATGGAAGAATAGCATAG
CTCCAGGCTGAAGCCACAGGACAGGGATGTGAGTTGGTATTCAGGGAAGGGCGAGTTTGC
TTAAGTTCTTCCCTCCCCGTTTCTTCTTTGTTTCCATCCCTGGCCTGCCTAAAAGCCTAT
TATTTTCCATCTCTAGCCCTTAAGCCTATTAGTTTCCATCCCTAAATCTTCCTGTGGATA
CTGATGGAATTTGGACTTTCATTGATTGTGTCAATTCTGAGAGGTTTCGGTTTTTGAACT
ACAGCTCTTTGAAACTCAACTTTTTATGAACTGAAGACCCTTGCAAAATATGCCACATTA
TCACTTAAATCATTCAAATAATAGTGGATAAATCAGATAATTACCAGGTACCTATAGGAA
GTTGTTGGTCCATTGTGCATGATGCAGCTGAAATTTATCTCGCAAGATCTCAAAATGATT
GAAGGTCCGAAACTATGTGCCAGATCTGTTGGTTGTGCATGGACAGGACTTGTGGGGTTA
ATGATCTGAAGTTAGTGGTGCAAGGTGACATAGGTGACTTGGCCTTATCAGATCAGAAAG
AAGTATCTGGAGGGAATGGTGTATTGTTATTCTCTGATTCATATAACACTGAGGATTTTC
TTAGAAGTTGAATGACTTCATCTTTGTTTTTCATCCATGCTTAAAAGTGTAATTCGCAAA
ATGTGGTTCAGTCAAAGCTAAGATTTTAACGAAATATATTAATTATCTCAGTTCTTTTTC
TCTTTGTAACACACGTAAATTGAGTTTTGCTCTTGATTTAAGTTTCTTAGACATGGCCTA
TTGTTCCTCTCCTTTCCTATTTGATACCAGCTGTTTTATAAGCATAAGCCTTTGTCTGAG
TTGAAAGAGCTTTTCAGGTTGCAGATGAGCTTGTGGCTGAATTTGCCGATCCTAGCAATA
GTTTAGCAACCCCAGATCAGGTTTCTGTTCTTCCACCAGGCTGATAGATATTTAATCCCA
TCTGAATGCTTGTATATCTTATCTAGAGAAGTTGAATTTAACTAAATCTTCTTTTGTTGC
TAATATTTATTTCAACAGCAACAATATGATGAGAAAAACATAAGAC

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: Ciclev10012088m
Scaffold: scaffold_6
Start: 2067586
End: 2073007

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00176:mRNA_13.1
Scaffold: C_unshiu_00176
Start: 89975
End: 97731
Gene function: Transcription factor-like protein DPB

AGI map info (Shimada et al. 2014)

AGI LG: AGI-08
AGI cM: 96.807

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: SI094
DNA sequence around SNP1:

GAATTAGGATTTCAATAAATAAGAAGTAAGACGGATGCCAATTATTTGAGAAGCTGACAT
[A/T]TTGAGTACCTCATGTGGAAATCAGTTCCTACATGCTTTATCTTCCCTCTGATTGG
ATATG

SNP2: SI211
DNA sequence around SNP2:

TTGATCCATTCTAGTGTGTGGTGTCCTTGAGAATGCCTTGACTTCCTGAAGTGATTACAG
[T/C]AGACCTGTGCGGATATTATCTCCATGCCTTTGTGCTGATCCATATTTTTGTT

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: