Citrus CAPS Marker Database

Locus name: Fb0827

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 60
Main product (bp): 800
Comment on PCR:
F-primer: TTCCGAACATGGTGGTAATGG
R-primer: GCCGCAATGTGAGATGGTGTA

EST info

EST Accession number 1: DC888835
EST Accession number 2:

sequence-tagged site (STS seq)

STS:

TCATGCAGGTTGGCAAAGGCAGGATACTGATTGAAGGTGAAAGAGTCGCACTCTTGGGCT
ATGGTACAGCCGTTCAGAGCTGTTTAGCTGCTTCTGCTTTATTGGAATCCAATGGGTTAC
GGCTGACTGTAGCTGATGCTCGATTCTGTAAACCACTGGATCATGCCCTCATTCGTAGCT
TGGCAAAATCACATGAAGTTTTGATTACTGTGGAGGAAGGATCAATTGGGGGTTTTGGAT
CTCATGTTGTTCAGTTCCTCGCTCTCGATGGTCTTCTTGATGGCACAGTCAAGGTACGTT
CAGAATCTTAATGCATTTTTCACTCGGGAAAGTGTGAAGAGTTTGAAATTTGGAAATGCT
TGGAAATGACTTGATCAATCAATAAAACACTAAAAGTACTATGCCTTTTCATATATTGTT
GGAAGTAAACAAGATTATGG

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: Sty1
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: 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

Population name: Jutaro unshu x Trovita orange
Restriction enzyme: Sty1
Comment:
Figure legend:

Population name: Kiyomi x Miyagawa-wase
Restriction enzyme: Sty1
Comment:
Figure legend:

Target on C. clementina (v1.0)

Transcript ID: Ciclev10004432m
Scaffold: scaffold_9
Start: 2353442
End: 2357780

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00394:mRNA_9.1
Scaffold: C_unshiu_00394
Start: 41719
End: 45690
Gene function: Chloroplast 1-deoxy-D-xylulose-5-phosphate synthase

AGI map info (Shimada et al. 2014)

AGI LG: AGI-03
AGI cM: 19.017

KmMg map info (Omura et al. 2003)

KmMg LG: KmG-031
KmMg cM: 16.544

JtTr map info (Omura et al. 2003)

JtTr LG: JtR-034
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: SI215
DNA sequence around SNP1:

CTCTTGGGCTATGGTACAGCCGTTCAGAGCTGTTTAGCTGCTTCTGCTTTATTGGAATCC
[A/C]ATGGGTTACGGCTGACTGTAGCTGATGCTCGATTCTGTAAACCACTGGATCATGC
CCTCA

SNP2: SI301
DNA sequence around SNP2:

TTACTGTGGAGGAAGGATCAATTGGGGGTTTTGGATCTCATGTTGTTCAGTTCCTCGCTC
[A/T]CGATGGTCTTCTTGATGGCAC

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: