Citrus CAPS Marker Database

Locus name (alias): Ov0127 (Ov0126.2)

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 54
Main product (bp): 800
Comment on PCR:
F-primer: TTATTTCCAAAACACCCAAGG
R-primer: CACAGTAAAACGGGCAACG

EST info

EST Accession number 1: AU186445
EST Accession number 2: DC893857

sequence-tagged site (STS seq)

STS:

ACTGTTGTTTCCTCTCATCGGTCACCAGTGAGTTAATGCATAGGGACAGGTCAGCTCTTT
TAAATTATAAATTCATTTTTTGGCCGTTAGCGTTGCTACCAGCGAATGTACATATGAATG
TGTCTTTTGCCTTGTAACAATGCGTCTCTTGAAGGTTGAGGGTGGTCGACCATAGAGTGA
AGCATATTGTTTGCCTTTTGTGGTTTTCAAAAGTAAAGCCTTTTTGTGCATTTGAAGTCT
TAGCCTAGTTGTGCAAGGGAGCTGCCCATGGGCTGGGCAGGTTGCTGGGTTTCAATTATT
AAGTCATGGCAAAGACAGGATTGAAAGGTGTGATCCTGTTTCCTATATATTGTTCGAGCT
TCTGACACATATAATTTTGGTCTCCCAGATCCGACCTTTGTGGAGACATTATTTCCAAAA
CACCCAAGGACTCATCTTTGTGGTTGACAGTAATGATCGCGACCGTGTGGTAGAAGCTAG
GGATGAGTTGCACAGAATGTTGAATGAGGTAAACTATTGCTACTAAAAGGAAACAATAGC

STS source:
STS Forward / Reverse: Foward read

STS:

ATGTTTTT ATGTTGATGA TACTGTTGTT TCCTCTCATC GGTCACCAGT GAGTTAA
TGC ATAGGGACAG GTCAGCTCTT TTAAATTATA AATTCATTTT TTGGCCGTTA G
CGTTGCTAC CAGCGAATGT ACATATGAAT GTGTCTTTTG CCTTGTAACA ATGCGT
CTCT TGAAGGTTGA GGGTGGTCGA CCATAGAGTG AAGCATATTG TTTGCCTTTT
GTGGTTT

STS source:
STS Forward / Reverse:

Experiments: Restriction fragment profile

Compared cultivars (Left, (Middle), Right): Trovita orange/Kiyomi/Miyagawa-wase
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: Ciclev10022482m
Scaffold: scaffold_3
Start: 46814909
End: 46817474

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00053:mRNA_57.3
Scaffold: C_unshiu_00053
Start: 477728
End: 479995
Gene function: ADP-ribosylation factor A1F

AGI map info (Shimada et al. 2014)

AGI LG: AGI-05
AGI cM: 65.51

KmMg map info (Omura et al. 2003)

KmMg LG: KmG-05S
KmMg cM: 81.631

JtTr map info (Omura et al. 2003)

JtTr LG: JtR-05
JtTr cM: 45.715

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-05
Rp/Sa cM: 64.195

CAPS genotyping (Hybrid cv/Citrus collection)

CAPS genotyping: Hb

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: SI124
DNA sequence around SNP1:

ATGTACATATGAATGTGTCTTTTGCCTTGTAACAATG[T/C]GTCTCTTGAAGGTTGAGG
GTGGTCGACCATAGAGTGAAGCATATTGTTTGCCTTTTGTGG

SNP2: SI284
DNA sequence around SNP2:

ATGTACATATGAATGTGTCTTTTGCCTTGTAACAATG[T/C]GTCTCTTGAAGGTTGAGG
GTGGTCGACCATAGAGTGAAGCATATTGTTTGCCTTTTGTGG

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: