Citrus CAPS Marker Database

Locus name: Bf0193

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 800
Comment on PCR:
F-primer: TACATGTTGGAAGGGCTTAG
R-primer: CTCAATCGATATGGGGTAAAT

EST info

EST Accession number 1: DC886216
EST Accession number 2: DC886217

sequence-tagged site (STS seq)

STS:
CTGATGTCTTACATGAGTGTACTCTTTCAGATTTGTCCATATTGGAAGTTTGCTTACATG
TCAGCAAATGTCGTCATTGGGGAAGCAGTGGAGAATGAACATATAATTCACATCATTGAT
TTCCAGATTGCTCAGGGCACCCAGTGGATGTTCCTCCTCCATGCTCTTGCAAAACGGCCT
GGTGGATCCCCACTTGTCCGCATAACTGGGATTGATGATTCCCAATCAACCCATGCTCGT
GGTGGAGGACTTGATATTGTAGGGAAGAGACTGTCGGAGTTTGCTGCATCCTGCAATGTC
CCATTTGAATTCCAAGATACTGCCATGACTGCTTGTGAGGTTGAACGACAACATCTAAGG
GTTCAACCTGGGGAAGCTGTGGTGGTGAATTTTCCTTTTGTGCTGCACCACATGCCTGAT
GAGAGTGTGAGTACTGAGAATCATAGAGACAGGCTATTGAGACTGGTTAAAAGCTTGTCA
CCCAAAGTTG
STS source:
STS Forward / Reverse:

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:
Compared cultivars (Left, (Middle), Right): Shiamese acidless/RP-94
Comment:
Figure legend:

Experiments: CAPS pattern of hybrid cultivar

Experiments: CAPS pattern of Citrus collection

Rsetriction enzyme: BamH1
Comment:
Figure legend:
CV (No.1 Top) 101 Tahiti, 100 Rangpurlime, 102 Limonia, 104 LisbonL, 99 SweetLime, 92 Hirado, 87 MGF, 85 Kinukawa, 84 Hassaku, 83 Yamamikan, 78 Natsudaidai, 58 Rokugatu, Tr Trovita, 50 WNV, 44 Tankan, 42 Iyo,
(No.1 Bottom) 39 HgNt, 36 Ujukitsu, 32 Kawabata, 30 Shunkokan, 70 Yuzu, 54 Henka, 53 Ichang lemon, 37 Kunenbo, Mg Miyagawa, 31 Yatsushiro, 27 Kabuchii, 26 Ponkan, 25 Medet. 22. Dancy, 14 Tachibana, 11 Hirakishu (26' Ohta ponkan)
(No.2 Top) 6 Cleopatra, 4 CQ, 2 Fukuremikan, FD Hiryuu, 124 Largeleaf, 125 Small leaf, 141 CTV-S, 136 Rubidoaux,
(No.2 Bottom) FD, Hassaku, Km, F1, RP94, SA, 02, 04, 05, 06, 07, 08, 09, 10, 11, 13
BDZ BenDi Zao, SO Shuto, BP Banpeiyu

Experiments: Segregation pattern

Population name: Kankitsu Chuukanbohon Nou8gou x Siamese Acidless
Restriction enzyme: BamH1
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: Kankitsu Chuukanbohon Nou8gou x Siamese Acidless
Restriction enzyme: Nde2
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: Ciclev10014811m
Scaffold: scaffold_2
Start: 35970577
End: 35973973

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00077:mRNA_15.2
Scaffold: C_unshiu_00077
Start: 102078
End: 105358
Gene function: Scarecrow-like transcription factor PAT1

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:
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-06.2
Rp/Sa cM: 14.065

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: SI100
DNA sequence around SNP1:
TATTGTAGGGAAGAGACTGTCGGAGTTTGCTGCATCCTGCAATGTCCCATTTGAATTCCA
[A/T]GATACTGCCATGACTGCTTGTGAGGTTGAACGACAACATCTAAGGGTTCAACCTG
GGGAA
SNP2: SI109
DNA sequence around SNP2:
AAATGTCGTCATTGGGGAAGCAGTGGAGAATGAACATATAATTCACATCATTGATTTCCA
[A/G]ATTGCTCAGGGCACCCAGTGGATGTTCCTCCTCCATGCTCTTGCAAAACGGCCTG
GTGGA
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: