Citrus CAPS Marker Database

Locus name: Al0308

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 54
Main product (bp): 1100
Comment on PCR:
F-primer: GAAACCCCACAGCAAAATC
R-primer: CCTTGAATAACATTGGCAGAA

EST info

EST Accession number 1: C95336
EST Accession number 2: DC892945

sequence-tagged site (STS seq)

STS:

CACCAGCAAAGCTTGACATAGTCCTGATCATCTTCTGCTTAGCACGGTTGATATAATCCG
AGAAATGATCTTTGCCNGCCGTGCCTTCTCCCCCTCTTGCTGACGGTGCATTAATCTTTC
CGTCACCTCCAACACTTGACGGAGCTCTAATCTTTATCCCTGCACGTTTGATGTATTTGC
TAAATACATCTTCATCTTCGTCAATAATACTATTCGCATTCGTTTTGTTGTTACTGCTTT
CCATCCTGCGGCCAGTGGTGGCCTTGTGCCTCTTTTCTTGAGCAGCAGCTGCCTCGGGCT

STS source:
STS Forward / Reverse:

Experiments: Restriction fragment profile

Experiments: CAPS pattern of hybrid cultivar

Experiments: CAPS pattern of Citrus collection

Experiments: Segregation pattern

Target on C. clementina (v1.0)

Transcript ID: Ciclev10028262m
Scaffold: scaffold_8
Start: 24521116
End: 24524868

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00021:mRNA_97.1
Scaffold: C_unshiu_00021
Start: 630527
End: 634212
Gene function: NAD(P)H dehydrogenase B2

AGI map info (Shimada et al. 2014)

AGI LG: AGI-05
AGI cM: 56.788

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: SI045
DNA sequence around SNP1:

CCAACACTTGACGGAGCTCTAATCTT[T/G]ATCCCTGCACGTTTGATGTATTTGCTAAA

SNP2:
DNA sequence around SNP2:

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: