Citrus CAPS Marker Database

Locus name: If0210

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 60
Main product (bp): 1300
Comment on PCR:
F-primer: AGTCAAACAGGCGTGCTCT
R-primer: TTTAGTGCCATTAGGGGAAAG

EST info

EST Accession number 1: DC893546
EST Accession number 2: DC893547

sequence-tagged site (STS seq)

STS:

GAGGGTATGTACACGGGTCAGTTCGTGTACTGCGGCAAGAAAGCCACTCTGATGGTTGGT
AATGTGTTGCCCGTTAGATCTATCCCTGAAGGAGCTGTCGTTTGCAACGTTGAGCATCAT
GTTGGTGATCGCGGTGTTCTCGCTAGAGCTTCTGGTGATTATGCCGTTATCATCAGTCAT
AACCCCGATAATGACACCACCAGGTCCTCTTTTTTTTAAACTTTTTTTGGTATTTT

STS source:
STS Forward / Reverse: Foward read

STS:

CCAGCAGTTTCGCTTCACTCTGAATTTGTGGTATGCATTACCAGCTTTGAGAAGGGGCTT
CTCAGTCCTCCCTCCGCCGGCAACCTGCCCAATCATCGCTCTGCAGCCACTTGGAATAAT
CTTTTTGGCACCAGATGGAAGCTTGACCCTGTATGGATATGATACCAAAAATCACTTATT
CTAACTTTGGGGAAATGAGGATACTGACTGTTTCAGTTTCAGAAACAACCAACAGAAGAA
ACAAACAATATA

STS source:
STS Forward / Reverse: Reverse read

Experiments: Restriction fragment profile

Compared cultivars (Left, (Middle), Right): Trovita orange/Kiyomi/Miyagawa-wase
Comment:
Figure legend:

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: Ciclev10012145m
Scaffold: scaffold_6
Start: 21035910
End: 21038368

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00052:mRNA_38.1
Scaffold: C_unshiu_00052
Start: 265461
End: 267883
Gene function: Fructose-bisphosphate aldolase, cytoplasmic isozyme

AGI map info (Shimada et al. 2014)

AGI LG: AGI-02
AGI cM: 73.759

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: SI042
DNA sequence around SNP1:

ATGTACACGGGTCAGTTCGTGTACTGCGGCAAGAAAGCCACTCTGATGGTTGGTAATGTG
[T/C]TGCCCGTTAGATCTATCCCTGAAGGAGCTGT

SNP2:
DNA sequence around SNP2:

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: