Citrus CAPS Marker Database

Locus name: Tf0054

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 800
Comment on PCR:
F-primer: GGGACCTGGTGGTATTACGC
R-primer: AGAGCCTCGCAAGAATAAGCA

EST info

EST Accession number 1: BQ624467
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
GGGACCTGGTGGTATTACGCCACTACATTTGGCTGCATGTACGTCGGATTCAGATGATAT
AATAGATGCTTTGACAAATGATCCACAGGAGGTATCTTATTCTATATTCTTACTTCAGCT
GTCTGCTCATTTGAGTCTAATTGGATAGTTTAAATAATAGCTTCTGAAACTGAAATCTAT
CTTCTATATAATTACCCTTTTCAACCGTATAGAGTTGTTTTCATCTTCTTTTGGGTGGTG
GTGGGTGGGTCACTATTCTTGGTTGGCTGCCTGTCTTTTGACCTCTTTTTCTTTTTTTAT
AATTTTTTTAATTCATATCTTGTTTACATGGGTAACTTTCATTATGCCATTTTGCCCTTT
TTTTCCCTCAGATTGGGCCGTCCTCCTGGAATTCCATTCTTGATGCTAGTGGGCACTCTC
CATATTCTTATGCCTTAATGAAGAATAATCACGCTTATAACAAGCTGGTGGCTCGTAAAC
TTGCTGACAGAAGAAATGGTCAAGTTACAATACCAGTTGGAGTAGAGATAGAGCAATCTG
GCTTGGCAAAGGAGCAGGTACATGGGTTAAGTTCCCAATTCAAACAAAGGGGTAAATCTT
GCACTAAGTGTGCAGTTGCTGCAGCAAAGTTGAACAAAAGGGTTCGAGGTTCACAGGGCT
TACTTAACCGCCCTTACATTCATTCAATGCTTGCCATTGCTGCTGTCTGCGTGTGTGTCT
GCTTATTCTTGCGAGGCTCTCC
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: Hae3
Comment: DNA sample: New CCN
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
Rsetriction enzyme: Pvu2
Comment: DNA sample: New CCN
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: Pvu2
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: Ciclev10000100m
Scaffold: scaffold_5
Start: 43108998
End: 43114214

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_01422:mRNA_2.1
Scaffold: C_unshiu_01422
Start: 15150
End: 33598
Gene function: Hypothetical protein

AGI map info (Shimada et al. 2014)

AGI LG: AGI-09
AGI cM: 21.045

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: SI238
DNA sequence around SNP1:
ATAACAAGCTGGTGGCTCGTAAACTTGCTGACAGAAGAAATGGTCAAGTTACAATACCAG
[T/C]TGGAGTAGAGATAGAGCAATCTGGCTTGGCAAAGGAGCAGGTACATGGGTTAAGT
TCCCA
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: