Citrus CAPS Marker Database

Locus name: Tf0143

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 650
Comment on PCR:
F-primer: AGTGATGAAGGCATCGAA
R-primer: TATACAGAATATGGTATGGGA

EST info

EST Accession number 1: DC885186
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TTTCTATGTTCACATAGCTAAATGTGTATTGTACAAATTATTAGTATACATCACTTACTC
ACAATATTAGAAGACGAGAGGGGGTGAAAATTGTATTATCAAAGACATGGGATATATAGA
ACAGTTCATACCATGTGCTGGCGAAGATAATCAACTCGAGTTGGATGCTTGAGTTTCATC
AGACCCTTAACTTCATGTTTACGGACCATTTCCCTTGAAATATTTAAGTTCCCAGCAATT
TCTCCCAGTGTCCTATCACCTTTACCGTCCAGTCCAAATCTTTGTCTGATCACCAAGCTC
TCCTTAGGCTTCAGAGAATCAAGCTGGCAAGGAGTACCACAGAAAGTTTGTAAGTTACAG
ATATATAGTGAATCATAAACGGAAGATAGATCAACTCATCAAAGTGGTTATTAAGTGCAG
TAATGGTCATATGATTTGATTGACAAGCAATGAATTGTGGGAGAAATGCAAGGTTGAAGA
GAACAAGTGCTTACCACATCATCAAGCGCAAGCCTTAGAAGAGCGGGTTGTCTCTGGTTT
TCATTTTCAACACCATCGAC
STS source:
STS Forward / Reverse:
STS:
TACAAATTATTAGTATACATCACTTACTCACAATATTAGAAGACGAGAGGGGGTGAAAAT
TGTATTATCAAAGACATGGGATATATAGAACAGTTCATACCATGTGCTGGCGAAGATAAT
CAACTCGAGTTGGATGCTTGAGTTTCATCAGACCCTTAACTTCATGTTTACGGACCATTT
CCCTTGAAATATTTAAGTTCCCAGCAATTTCTCCCAGTGTCCTATCACCTTTACCGTCCA
GTCCAAATCTTTGTCTGATCACCAAGCTCTCCTTAGGCTTCAGAGAATCAAGCTGGCAAG
GAGTACCACAGAAAGTTTGTAAGTTACAGATATATAGTGAATCATAAACGGAAGATAGAT
CAACTCATCAAAGTGGTTATTAAGTGCAGTAATGGTCATATGATTTGATTGACAAGCAAT
GAATTGTGGGAGAAATGCAAGGTTGAAGAGAACAAGTGCTTACCACATCATCAAGCGCAA
GCCTTAGAAGAGCGGGTTGTCTCTGGTTTTCATTTTCAACACCATCGACATCAGTAATCC
STS source:
STS Forward / Reverse:

Experiments: Restriction fragment profile

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

Population name: A255 (Okitsu46gou) x G434 (Kankitsu Chuukanbohon Nou5gou)
Restriction enzyme: Hha1
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: A255 (Okitsu46gou) x G434 (Kankitsu Chuukanbohon Nou5gou)
Restriction enzyme: Sty1
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: Ciclev10004758m
Scaffold: scaffold_9
Start: 30040457
End: 30044615

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00134:mRNA_22.1
Scaffold: C_unshiu_00134
Start: 203848
End: 206784
Gene function: Sigma factor

AGI map info (Shimada et al. 2014)

AGI LG: AGI-03
AGI cM: 68.846

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: SI127
DNA sequence around SNP1:
GTTCATACCATGTGCTGGCGAAGATAATCAACTCGAGTTGGATGCTTGAGTTTCATCAGA
[C/G]CCTTAACTTCATGTTTACGGACCATTTCCCTTGAAATATTTAAGTTCCCAGCAAT
TTCTC
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: