Citrus CAPS Marker Database

Locus name: Bf0174

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 1100
Comment on PCR:
F-primer: GGGAAGTTGCCTTTTCTGTTT
R-primer: TCAAGAGCATTGCCACCATA

EST info

EST Accession number 1: DC886036
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TGGGTTCTTAAATGGTGGTGGTGAAGCTGTTCCTTATCCCTGCAAGGTTAAGGTGGGCAC
ATTTATTTGATAAACTTCTTATCTTAAATTTGACCACTCAGATCTTCGGGGTGCAGGGAT
AAGGGGGGTTTGGTTTTGTTTTCTGTTTTGGCTGTATGTAGGCTGAGTGATGCCAAGTAG
TTGACTTGAGCATGTTTAACTAGATTTATGAGCCCTTTTGACTGAGTTTTTCGGCAGGCT
GAACTTTGGCTCAAGTCTGAGAAGGTTAATTTATTGTGCAAATGATGACTTAACCGTTCT
TCCTCGCGAAGCCGAACTTGAGCTGAGCTCAATTTGTCTGATCTGTTCTGCAACCTATGT
CTTTAATAATTTTCTTATGTTTGATAAACCTTAATATTTGTTCTTTTGGCCTAACCTCTA
CCTTCTTTTG
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:

Experiments: CAPS pattern of hybrid cultivar

Experiments: CAPS pattern of Citrus collection

Rsetriction enzyme: Hinf1
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: Hinf1
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 Okitsu41gou
Restriction enzyme: Rsa1
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: Rsa1
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: Ciclev10019861m
Scaffold: scaffold_3
Start: 3551542
End: 3555978

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00120:mRNA_17.1
Scaffold: C_unshiu_00120
Start: 130029
End: 134158
Gene function: Atp-dependent RNA helicase

AGI map info (Shimada et al. 2014)

AGI LG: AGI-05
AGI cM: 25.049

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: SI282
DNA sequence around SNP1:
ATTGTGCAAATGATGACTTAACCGTTCTTCCTCGCGAAGCCGAACTTGAGCTGAGCTCAA
[T/C]TTGTCTGATCTGTTCTGCAACCTATGTCTTTAATAATTTTCTTATGTTTGATAAA
CCTTA
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: