Citrus CAPS Marker Database

Locus name: Bf0150

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 56
Main product (bp): 1000
Comment on PCR:
F-primer: AATATGGACTCGTCGGTGTT
R-primer: GCGGAAATGTAATGATACCAA

EST info

EST Accession number 1: DC885821
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TGGTGGTGTTAAACAATCTGGTCTTGGACGGGAAGGTTCAAAGTATGGGATGGATGAATT
CCTGGAAGTAAGTAAAATGAAAATACTGTTTTATATAAATTTTTAAAAATTTTAGGGAAG
TTAAAATGACGTAATCAACTTTCCCCTTATTTTCTGGGGATTTTATTGAGTTAGTGGATT
GCATTTGACTTGGTTCATCTGTAGGAATTACATTTATTCATCACTGATGCCACAAATCTG
AATGACTTGCTACTGTAATGGAGCCACCACTACCATTTTTTAGAATGATTTATATGAGTT
GTTTGATTTTTTTTCTTTGTGTACTATTTATTTTATTTTGCATAACACCAAGGACCTGAA
AGAATCGTCAAGAAATTTGGGTTTTACTTTTCTGTGGTTATCGTATTGAAGCATCCTTTC
ATTATATTCAGATAAAATATGTGTGCTTGGGAGACATGAACAGAAAATGATGGGCCAGTT
STS source:
STS Forward / Reverse: Foward read
STS:
CCAGACATTCAAGTTCCATTTTGCAAACTTATTTATGTACATGGGGTATCAATAGCAAAC
CACCTATGGCTCACTACTAGACATTCAAGTTCCATTTTGCAAACTTATTTATGTACATGG
GGTATCAATAGCAAACCAACTATGGCTCACTACTACCTCCACATCAAACGCTTGAGGCTC
ACACTATTCCAATCCGTCTTCAAAATACAGTTCAAAGGCAGTACTAAAGGCTCCTTCCTT
CTGCATAAAATAAATCATTTAACTTTAAAAACAAATGTTGTCAAATAAAAGTCAACTAAG
TGGAGCTACAAGATCCAAACCTTCTCCATA
STS source:
STS Forward / Reverse: Reverse read

Experiments: Restriction fragment profile

Compared cultivars (Left, (Middle), Right): A255(Okitsu46gou)/G434(Kankitsu Chuukanbohon Nou5)
Comment:
Figure legend:
Compared cultivars (Left, (Middle), Right): Frying dragon/Hyuuganatsu
Comment:
Figure legend:

Experiments: CAPS pattern of hybrid cultivar

Experiments: CAPS pattern of Citrus collection

Experiments: Segregation pattern

Population name: Kankitsu Chuukanbohon Nou8gou x Siamese Acidless
Restriction enzyme: Hinc2
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: Ciclev10004834m
Scaffold: scaffold_9
Start: 31018836
End: 31027361

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00003:mRNA_85.1
Scaffold: C_unshiu_00003
Start: 596288
End: 610960
Gene function: Aldehyde dehydrogenase

AGI map info (Shimada et al. 2014)

AGI LG: AGI-03
AGI cM: 77.92

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-03
Rp/Sa cM: 77.748

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: SI316
DNA sequence around SNP1:
AACGCTTGAGGCTCACACTATTCCAATCCGTCTTCAAAATACAGTTCAAAGGCAGTACTA
[A/C]AGGCTCCTTCCTTCTGCATAAAATAAATCATTTAACTTTAAAAACAAATGTTGTC
AAATA
SNP2: SI370
DNA sequence around SNP2:
ATCGTATTGAAGCATCCTTTCATTATAT[T/C]CAGATAAAATATGTGTGCTTGGGAGAC
ATGAACAGAAAATGATGGGCCAGTT
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: