Citrus CAPS Marker Database

Locus name: Tf0022

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 1200
Comment on PCR:
F-primer: CGGCAATGCTACATAACTC
R-primer: AGGGTAGAGAGATGGGCTAAC

EST info

EST Accession number 1: DC891569
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
CTATCAGACCGGTATGTTTTATCAGTTATTACCCCAAGTACCAATTCCTTCTACTTAATT
TTGTATGACATGTTTTTTAGTTTATTAATTGGATTTTTTCTTCAAAATTTTGTTTATATG
GTTTTTTACAGCTTAGATGTTGTTGTGGGCACACCCTTAATATTTCTTTTTTCTGCTGCC
CCCCCCCCCCCCTTTGTTTTTACATGCCCACCCTTAATTTAGGCTTTTAGGTCAAGAAAT
GCAACATGGTATAAGAGCTAGTTTGACGAAGACATGAAGTTTTTTAGTGGTCACATTCCT
TATTGTTAATTAATCGAATTGTGATAATTTGTGTGTATCTATGCTGTTGTCAGGCCCTCA
TAATTTGAGCTTTTAGACTAAATAGTGTTTAAAAAGTGTAGAAACTAGATGATCTGTTAT
TTTCTAATTACGAAATTGTTTCATCTGACTTTATTTATTTATTTTAAAGAAGAAAAAAAA
TTATCTTTACCTCTGGTTAATTCTCTGTTTGTTTTATTTATTTTATATGTTGTATGGGGC
TTCCATTGAAAATTTTTATGTTTTGATGCTATCAGGGTGAACTGGATTGTCCTTTCTACT
TGAAAACTGGGAGGTGAATATATTGATATTCGTGTTTTCTTTTTTTAATTGAATTATTTA
TTTATTTTTTTAAAACGAAAGAATATATAGAGAGAATGAC
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

Resriction enzyme: Hha1
Rank as CAPS marker: Disagree by Marco analysis
Comment: DNA sample: New CCN
Figure legend:
CVName 1. Nagami, 2. Budha's, 3. Miyagawa, 4. Trovita, 5. Kiyomi, 6. Tachibana, 7. Koji, 8. Kinokuni (8' Hirakishu), 9. Mato pumello, 10. Kunip,
11. King, 12. Ponkan (12' Ohta ponkan), 13. Dancy, 14. Willowleaf, 15. Clementine, 16. C-haploid, 17. Encore, 18. Amaka, 19. Youkou, 20. Shiranuhi,
21. Harumi, 22. Nishinokaori, 23. Duncan GF, 24. Mineola, 25. Seminol, 26. Seihou, 27. Akemi, 28. Tsunokaori, 29. Ariake, 30. Nankou,
31. Mihocore, 32. Hareyaka, 34. Harehime, 35. Hayaka, 36. Southern Red, 37. Amakusa, 38. Setoka, *. Flying Dragon, SY(Southern Yellow), 40(MK, Mukakukishu)

Experiments: CAPS pattern of Citrus collection

Rsetriction enzyme: Hha1
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: Hha1
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: Hind3
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: Ciclev10005681m
Scaffold: scaffold_9
Start: 31237089
End: 31243866

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00003:mRNA_112.1
Scaffold: C_unshiu_00003
Start: 803488
End: 808730
Gene function: Zinc finger CCCH domain-containing protein 32

AGI map info (Shimada et al. 2014)

AGI LG: AGI-03
AGI cM: 78.631

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: Hb

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: SI116
DNA sequence around SNP1:
TGAAGTTTTTTAGTGGTCACATTCCTTATTGTTAATTAATCGAATTGTGATAATTTGTGT
[C/G]TATCTATGCTGTTGTCAGGCCCTCATAATTTGAGCTTTTAGACTAAATAGTGTTT
AAAAA
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: