Citrus CAPS Marker Database

Locus name (alias): Ov0508 (Ov0507.2)

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 54
Main product (bp): 500
Comment on PCR:
F-primer: GAAGCATGCCCCAACATT
R-primer: CATCCTAAGCAAAGTGCGACA

EST info

EST Accession number 1: DC894044
EST Accession number 2: DC894045

sequence-tagged site (STS seq)

STS:
GGTCTCCGCACGTAAGTATATATGATGCTTNTTCATCAATCGTTAATCGATTATTATCAG
TGCCTGGCTTCGATCATGGATTGATTTGATTTGATGATTTAGATACAACTTGGACAACAC
GATGGACGGNCTCTACATTGCCCCTGCTTTCATGGACAAGCTTGTTGTTCACATCACCAA
GAACTTCATGTCCCTGCCCAACATCAAGGTATATTTACTTATAGTTTCTGTAGTGATGAA
TACATTTAGGGAAATGTGATTAATAATTTTTCAAAACTTACATTTTTACAGGTTCCTCTC
ATCTTGGGTATATGGGGAGGCAAAGGGCAAGGAAAATCATTCCAATGTGAGCTTGTTTTC
GCCAAGATGGGCATCAAGTGAGTCCATGCTCTCTTGTCNTTTTTTTGGGTTTGAGGATAT
GTTTGGTGCGTACTTACTCTGTGATGTTATGATAATGATTTTTCAGCCCAATTATGATGA
GTGCCGGAGAATTGGAAAGTGGCAATGCTGGAGAACCCGCTAAGTTGATCAGGCAGAGGT
ACCGTGAGGCAGCTGACATTATCAAGAAGGGAAAAATGTGCTGCCTCATGATCAATGATC
TTGATGCAGGAGCTGGTCGTATGGGTGGCACCACCCAGTACACAGTTAACAACCAAATGG
TTAACGCCACACTCATGAACATTGCTGATAACCCAACTTGTGTCCAACTCCCTGGTATGT
CNACAAGGAGGAGACCCCCGTGTCCAATCATAGTCACCGGAATGACTTCCCACATGTATG
CTCTCTCATCGTGATGGTCGTATGGAGAAATCTACTGGCACCTACAGGGAGACCGTATGG
GGGTGCAGGGATCTCAGAT
STS source: Okitsu 46
STS Forward / Reverse: Foward read
STS:
CGTTAATCGATTATTATCAGTGCCTGGCTTCGATCATGGATTGATTTGATTTGATGATTT
AGATACAACTTGGACAACACGATGGACGGTCTCTACATTGCCCCTGCTTTCATGGACAAG
CTTGTTGTTCACATCACCAAGAACTTCATGTCCCTGCCCAACATCAAGGTATATTTACTT
ATAGTTTCTGTAGTGATGAATACATTTAGGGAAATGTGATTAATAATTTTTCAAAACTTA
CATTTTTACAGGTTCCTCTCATCTTGGGTATATGGGGAGGCAAAGGACAAGGAAAATCAT
TCCAATGTGAGCTTGTTTTCGCCAAGATGGGCATCAAGTGAGTCCATGCTCTCTTGTCNT
TTTTTTGGGTTTGAGGATATGTTTGGTGCGTACTTACTCTGTGATGTTATGATAATGATT
TTTCAGCCCAATTATGATGAGTGCCGGAGAATTGGAAAGTGGCAATGCTGGAGAACCCGC
TAAGTTGATCAGGCAGAGGTACCGTGAGGCAGCTGACATTATCAAGAAGGGAAAAATGTG
CTGCCTCATG
STS source: Okitsu 46
STS Forward / Reverse: Foward read
STS:
CGTTAATCGATTATTATCAGTGCCTGGCTTCGATCATGGATTGATTTGATTTGATGATTT
AGATACAACTTGGACAACACGATGGACGGTCTCTACATTGCCCCTGCTTTCATGGACAAG
CTTGTTGTTCACATCACCAAGAACTTCATGTCCCTGCCCAACATCAAGGTATATTTACTT
ATAGTTTCTGTAGTGATGAATACATTTAGGGAAATGTGATTAATAATTTTTCAAAACTTA
CATTTTTACAGGTTCCTCTCATCTTGGGTATATGGGGAGGCAAAGGACAAGGAAAATCAT
TCCAATGTGAGCTTGTTTTCGCCAAGATGGGCATCAAGTGAGTCCATGCTCTCTTGTCNT
TTTTTTGGGTTTGAGGATATGTTTGGTGCGTACTTACTCTGTGATGTTATGATAATGATT
TTTCAGCCCAATTATGATGAGTGCCGGAGAATTGGAAAGTGGCAATGCTGGAGAACCCGC
TAAGTTGATCAGGCAGAGGTACCGTGAGGCAGCTGACATTATCAAGAAGGGAAAAATGTG
CTGCCTCATG
STS source:
STS Forward / Reverse: Foward read
STS:
CAAATGACTCAAATCAGATAAAAGAGTCTTGGAAGATAACTTTAAAAAAAAAAACATTAA
TTAATTCATTATCCAGAGGCATCTGACTTCAAGCTTTTTGCATTGCACAGATTAACTTCA
TGAATATTATTGATTCCATCAAACAACATTAACATGTTGCGCTATCAATCTCAAATATAT
TACCAGCTCGATATGCACATTTCTCAAATAAAGAACCGCTTCCTGTGG
STS source: Okitsu 46
STS Forward / Reverse: Reverse read
STS:
GCCAGGTCTC CGCACGTAAG TATATATGAT GCTTATTCAT CAATCGTTAA TCGAT
TATTA TCAGTGCCTG GCTTCGATCA TGGATTGATT TGATTTGATG ATTTAGATAC
AACTTGGACA ACACGATGGA CGGNCTCTAC ATTGCCCCTG CTTTCATGGA CAAG
CTTGTT GTTCACATCA CCAAGAACTT CATGTCCCTG CCCAACATCA AGGTATATT
T ACTTATAGT
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

Population name: Jutaro unshu x Trovita orange
Restriction enzyme: Xba1
Comment: PCR_condition: 58C aneal
Figure legend:
A: A255 (Okitu46gou), G: G434 (Kankitsu Chuukanbohon Nou5gou),
K or Km: Kiyomi, M or Mg: Miyagawa-wase, MK: Mukaku kisyu,
LE: Lee, O: Okitsu41gou, RP or RP94: Kankitsu Chukanbohon Nou6gou,
Sacd or SA: Siamese Acidless, SW: Sweet spring, T or Tr: Trovita orange,
X: meaningless

Target on C. clementina (v1.0)

Transcript ID: Ciclev10031860m
Scaffold: scaffold_4
Start: 642157
End: 644823

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00202:mRNA_16.4
Scaffold: C_unshiu_00202
Start: 127322
End: 129988
Gene function: Ribulose bisphosphate carboxylase/oxygenase activase, chloroplastic

AGI map info (Shimada et al. 2014)

AGI LG: AGI-07
AGI cM: 8.291

KmMg map info (Omura et al. 2003)

KmMg LG:
KmMg cM:

JtTr map info (Omura et al. 2003)

JtTr LG: JtR-07
JtTr cM: 76.06

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: 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: SI322
DNA sequence around SNP1:
NTTTTTTTGGGTTTGAGGATATGTTTGGTGCGTACTTACTCTGTGATGTTATGATAATGA
[A/T]TTTTCAGCCCAATTATGATGAGTGCCGGAGAATTGGAAAGTGGCAATGCTGGAGA
ACCCG
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: