Citrus CAPS Marker Database

Locus name: Tf0079

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 1000
Comment on PCR:
F-primer: CCAACACAACACATGCGAACT
R-primer: CCTCTTCGGAAACAATCGTT

EST info

EST Accession number 1: CB293578
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TCTCCCTCCCTCGCTCGCATGCTCACCGTTTGAGGTCATCCATCATTTCTGAACCTCCTG
GTTCTCAACTTTCAACGGCGTCTGATCGAGTTCCAACTTTCAACGCTGCCCGTTGAACAG
TGGTTTATTCTTCGCTTGTTAGGTTTGGTGAGAAAATAATCAAAATTCCTCTTCATTACC
CAAGGTACAGGTACAATGATTCAGTCCTCGTTTATTTATATCTCATACTGTGCTAAAAGA
TTATAACAGAAAATAACGTTTTCCAAATAATAAATAATAACAATAATTAATAAAAGAACT
GTTATTTCATACTAATTTCCATTCGGAATTTAACTTGATTGAAATGGAAGAGGATTATAT
TGTGTGAAATTTACGTTATAATTTTATTATTTTTTTAACTGATTCAGATTGAGCGTTAGC
AATTAGCAGAAGCGAAGAGAGAGTTGCAGGATTGATAGGGTTGGGATCTGAGGTCTTGAC
CCGATGGCTCCGCTTGAGCAGACGAGCGAATCTCCTGCAACAGGAGGAGACTCGCAGAGA
TCTCTTCCGACGCCGTTTTTGACCAAAACTTACCAACTGGTTGACGATCCTTCGGTCGAT
GATTTAATCGCGTGGAACAGCGACGGATCGACCTTCATAGTCTGGAGACCAGCGGAATTC
GCCAGAGATTTGTTGCCTAAATATTTTAAACACAACAATTTCTCTAGCTTCGTCCGCCAG
CTCAACACTTACGTAAGCAATTTTTCTTTTCTTTTTACTTTTTTTCTCTTACAATTAGTT
GTAAAGATGAAAAAAAAGAAAAATTCTAATTAGTTTCCATTAATTCAATAGGGATTAGGA
AAGTAGT
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: Sty1
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: Sty1
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
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

Target on C. clementina (v1.0)

Transcript ID: Ciclev10021287m
Scaffold: scaffold_3
Start: 7047024
End: 7049430

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00425:mRNA_7.1
Scaffold: C_unshiu_00425
Start: 35608
End: 38027
Gene function: Heat stress transcription factor B-4

AGI map info (Shimada et al. 2014)

AGI LG: AGI-05
AGI cM: 45.092

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: K

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

SNP1: SI270
DNA sequence around SNP1:
TTTATTCTTCGCTTGTTAGGTTTGGTGAGAAAATAATCAAAATTCCTCTTCATTACCCAA
[C/G]GTACAGGTACAATGATTCAGTCCTCGTTTATTTATATCTCATACTGTGCTAA
SNP2: SI294
DNA sequence around SNP2:
CAGCGACGGATCGACCTTCATAGTCTGGAGACCAGCGGAATTCGCCAGAGATTTGTTGCC
[T/G]AAATATTTTAAACACAACAATTTCTCTAGCTTCGTCCGCCAGCTCAA
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: