Citrus CAPS Marker Database

Locus name: Tf0001.2

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 650
Comment on PCR:
F-primer: AAAAGTTCACAAGTACGAGGG
R-primer: AGCAATCCTTGAGAATACGCA

EST info

EST Accession number 1: DC883523
EST Accession number 2:

sequence-tagged site (STS seq)

STS:

CCTTCACGAGTTCTTGCATCAGCATGTTTCCATAGGAATATATTTCTCAAATCTAAAGTT
TGACTGACTCTGCTTTTTTTGGAACAGAAAAACAATCACAAGCATGCAGAAAGTTATGTT
GATCAGTCCCAAGGGATAAATAATGGATCTGCTACTGCATTAGTATTTGCTGCCAAGTTC
AATGAGAAAAACGTTTCCATTTCTCCAGCTATTCCAGGGAGTGGTCAGAAGCCGGTAGAA
TCTGACATGACCTCTGCTTCTACATTCAAGACAATGGATCCCCAGCCTGGAATAACAAAT
AAGGCAATGCCCTTTCCTATGTCACTCCAGCCAAACTGCTACAAACCTGTTAGGAATGGT
GGTGCGGCAGCTTCACTTCGGCCTAGACTGGCATCCGATGCAGAGAACACGACTTCTCAG
CCTCAAACCCTGGAATGTCTCACTAGGTCATGTACGGGAGACATGCCTATTTCTAATAAT
AAGAAGTT

STS source:
STS Forward / Reverse: Reverse read

Experiments: Restriction fragment profile

Experiments: CAPS pattern of hybrid cultivar

Resriction enzyme: Msp1
Rank as CAPS marker: Available marker
Comment:
Figure legend: DNA sample: Lane 9 (Mato) not analyzed.

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: 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: Msp1
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: Ciclev10020248m
Scaffold: scaffold_3
Start: 8647529
End: 8652282

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00580:mRNA_10.1
Scaffold: C_unshiu_00580
Start: 75118
End: 81473
Gene function: Transcription factor BIM1

AGI map info (Shimada et al. 2014)

AGI LG: AGI-05
AGI cM: 41.893

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, Cc

Cultivar identification (M: Cultivar identification manual / T: Ninomiya et al. 2015/ K: Nonaka et al. 2017)

Cultivar identification M/T/K: M,T

SNP typing by Illumina GoldenGate assay (Fujii et al. 2013)

SNP1:
DNA sequence around SNP1:

SNP2:
DNA sequence around SNP2:

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: