Citrus CAPS Marker Database

Locus name: Al0320

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 1300
Comment on PCR:
F-primer: CCACCGCATTCACACTTGA
R-primer: TCTCACATCCAAACCCCAAAG

EST info

EST Accession number 1: C95350
EST Accession number 2: DC892957

sequence-tagged site (STS seq)

STS:
AGCAACCATGACCACGCTCACTTGCTCGGGCTCCGGCACTGCCGCCACTGTCGCCAAGCT
TGCACAAAATAAAATCAGTTCATTTCCAAAAGCACCCTTGTTCACCCTCAACGGCAACAA
ATCGAAAATCGTTTTCCCAAAACTGAAATTGACCCCCTCAGTCTCACGCTCACCCTCGGA
TCTGTCGCCAGGCGATCCCCTTTCCCCATCTCCATCACCCTCGCCCGAATCACTCAAGTA
TCGCCTCCAAAGCAACGAAACCCTGTACGGACTCTTCCTCCTCTCTTTCTCCCCAACTCT
TGCCGAAATTTCGGGCCTGGCCGGTTACGATTTCGTCGTCGTAGACATGGAGCACGGCCC
TGGCGGCATTTCCGATGCTCTCGCTTGCCTTCACGCTCTTGCCGCCACGGGGACGCCGGC
CATTCTGCGGCTCCCTGAAAGTTGCCCAACTTGGGCTAAAAAGGCCCTCGATCTGGGCCC
ACAAGGGGTCATGTTCCCTATGATTGACTCCCCAGAAGCCGCCAAGGAAGCGGTGTCGTA
TTGCCGGTTCCCGCCTTCTGGAGTGCGGGGATCCGCTCACACGGTGGTGAGAGCGTCCGG
TTACGGGATTGATGAGGGATACTTGAGTAATTACGAGGAGGAGTTGTTGATTATGTGCCA
GGTGGAGAGCGAGGAAGGCGTCAAGCGAGCCGAAGACATCGCGGCGGTTGATGGGGTTGA
CTGCGTGCAAATGGGA
STS source: Okitsu 46
STS Forward / Reverse: Foward read
STS:
CTCCGGCACTGCCGCCACTGTCGCCAAGCTTGCACAAAATAAAATCAGTTCATTTCCAAA
AGCACCCTTGTTCACCCTCAACGGCAACAAATCGAAAATCGTTTTCCCAAAACTGAAATT
GACCCCCTCAGTCTCACGCTCACCCTCGGATCTGTCGCCAGGCGATCCCCTTTCCCCATC
TCCATCACCCTCGCCCGAATCACTCAAGTATCGCCTCCAAAGCAACGAAACCCTGTACGG
ACTCTTCCTCCTCTCTTTCTCCCCAACTCTTGCCGAAATTTCGGGCCTGGCCGGTTACGA
TTTCGTCGTCGTAGACATGGAGCACGGCCCTGGCGGCATTTCCGATGCTCTCGCTTGCCT
TCACGCTCTTGCCGCCACGGGGACGCCGGCCATTCTGCGGCTCCCTGAAAGTTGCCCAAC
TTGGGCTAAAAAGGCCCTCGATCTGGGCCCACAAGGGGTCATGTTCCCTATGATTGACTC
CCCAGAAGCCGCCAAGGAAGCGGTGTCGTATTGCCGGTTC
STS source: Okitsu 46
STS Forward / Reverse: Foward read
STS:
AAGCCGCCAAGGAAGCGGTGTCGTATTGCCGGTTCCCGCNTTCTGGAGTGCGGGGATCCG
CTCNCCACGGTGGTGAGAGCGTCCGGTTACGGGATTGATGAGGGATACTTGAGTAATTAC
GAGGAGGAGTTGTTGATTATGTGCCAGGTGGAGAGCGAGGAAGGCGTCAAGCGAGCCGAA
GACATCGCGGCGGTTGATGGGGTTGACTGCGTGCAAATGGGACCGTTGGATTTGAGTGCG
AGTATGGGGTACTTGTGGGACCCAGGGCACAGGAAGGTGAGGGAGATGATGAGGGTGGCG
GAGAAAGGGGTTTTGGGCGGTGGCAAGGCTTACTTGGCTGGGTTTGCTATGCCTCATGAT
GGACCTCTTGAGATGAAGTCACGTGGATACCACATGGTGTCCGGTGCCGTTGACGTGGGG
CTGTTTAGAAGTGCGGCTGTGGAGGACGTGGCAAGATTTAAGATGAATTTGACGGATGAT
GCCGATGATGATGATGATGATGCTTGGAGGGAAAGGATTAAAGATGCTGATGACAAGTAC
TGGAGCGAATAGTAGTGGGTAGTGCATGAATGAAAAATATCAATGAGATTGAGATGAAAT
GCATGCTAATGCTATCTATCTTATCAATCATCAACAACTTATGTTTCTGTAATCTCAAGT
TTTTAGTACCAACTTTCTTGATAAGCTCA
STS source: Okitsu 46
STS Forward / Reverse: Reverse read

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: Hind3
Comment:
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
Population name: Kiyomi x Miyagawa-wase
Restriction enzyme: Hind3
Comment:
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: Ciclev10020878m
Scaffold: scaffold_3
Start: 541575
End: 543121

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_01206:mRNA_1.1
Scaffold: C_unshiu_01206
Start: 4346
End: 5819
Gene function: Phosphoenolpyruvate carboxylase family protein

AGI map info (Shimada et al. 2014)

AGI LG:
AGI cM:

KmMg map info (Omura et al. 2003)

KmMg LG:
KmMg cM:

JtTr map info (Omura et al. 2003)

JtTr LG: JtR-05
JtTr cM: 23.89

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:
DNA sequence around SNP1:
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: