Citrus CAPS Marker Database

Locus name: Tf0056

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 1600
Comment on PCR:
F-primer: TCTCCTGATCATTTTCGCTAT
R-primer: GGCTCCTATTGTTTCGGTCTA

EST info

EST Accession number 1: BQ624834
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
AGTTTTTCAATTGATCAAATTAAGATGGGGAGGCAGCCATGCTGTGACAAAGTTGACTGA
AGAAAGGGCCATGGACAGCTGAAGAAGACAAGAAGCTCATCAACTTCATTCTCACCAATG
GCCAATGCTGCTGGAGAGCTGTTCCCAAGCTTGCAGGTCTCTGATTGATCATCAGCTCTT
TCAGCATATATAGACTCATCTTTCGCAGCTTCATTTTGAGCTCTTTCTTTCATTTGATAT
TTCTTGAATTTTGATTCTTTGCCTTTCATTCTTTGTTGTTTTGTCGAAGAGTGGGTAATA
ATATATTTTCTTCTTTAAGGGAAAAAGAAAATTAACCCACTTAGATTAAGAAGAAGGGCT
CCTTTTATTTCCATTTTTCTTTATGATAATTTTAATCTTTGGCTTTGGAAGAATGGACAT
GATTGATGTTGGGACAATGATGAAAGACGACTGAATCATTGTTAAGAAAAAGGGAAGGCG
TGAGCATGAGCAACAAAGGCTGATCACTGAAATTGTTTTCATTGTTTTCTTAAACCAAAT
AAATGTCAAACACCAATTAATTAATTTTTTTTT
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: Hinc2
Rank as CAPS marker: Available marker
Comment:
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: Hinc2
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: Msp1
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: Hinc2
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: Ciclev10012265m
Scaffold: scaffold_6
Start: 22305922
End: 22308021

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00252:mRNA_6.1
Scaffold: C_unshiu_00252
Start: 48632
End: 49537
Gene function: Myb domain protein 42

AGI map info (Shimada et al. 2014)

AGI LG: AGI-04
AGI cM: 49.225

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: SI061
DNA sequence around SNP1:
TGATAATTTTAATCTTTGGCTTTGGAAGAATGGACATGATTGATGTTGGGACAATGATGA
[A/C]AGACGACTGAATCATTGTTAAGAAAAAGGGAAGGCGTGAGCATGAGCAACAAAGG
CTGAT
SNP2: SI137
DNA sequence around SNP2:
CAATGGCCAATGCTGCTGGAGAGCTGTTCCCAAGCTTGCAGGTCTCTGATTGATCATCAG
[T/C]TCTTTCAGCATATATAGACTCATCTTTCGCAGCTTCATTTTGAGCTCTTTCTTTC
ATTTG
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: