Citrus CAPS Marker Database

Locus name: Ov0112

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 54
Main product (bp): 800
Comment on PCR:
F-primer: ATCACCCAATCTTGAATGC
R-primer: GGAATTTATTGAAAGCCAAAA

EST info

EST Accession number 1: AU186405
EST Accession number 2: DC893831

sequence-tagged site (STS seq)

STS:
GNCCCGCNTGCTTTCTACCCGGTTCCATTCTGAATTCTGGCTGTCGAATTGTGTACGTTT
GTAGGAACCCACTGGACCAATTCATCTCAGAGTGGCTATTTATAGCTAGAACTCAGGACA
AGGAGCCATGTGACCTAGCTGAAGCTTTTGAGAGGGCNTGTAATGGAATCCAGATTTTTG
GACCCATTTGGGAACATGCGTTGNGTTACTGGAAAGCCAGTATAGAACAACCCGATAAGA
TATTCTTCTTGAAATATGAAGATCTCAAAGAAGATATCGCCTCTTGCATTAACAGATTGG
CCGATTTCTTGGGATGTCCTCTTTCGGAAGAGGAAGTGACCCAAGGTGTGGTGGAAGAAA
TCTCCAAGCTATGTAGTTTTGATTATATCCAAAACTTGGAAGTCACCAAAACCGGTAGAG
CGTACGCAAATGGGGTGAAAAATTCTCACTACTTGAGAAAAGGTGAAGTTGGAGANTGGA
AAAATTATTTAACCCCATCGATGTCAGAGCGTTTGGAGAAAATAATCGAAGAAAAGTTGG
CTGGTTCTGGTCTTACCTTTAAAACTTCATTGCAGGAACCAGAATTGATATAGAGTGAAG
TTTAATTACTATGTTTCAAGCTTGGTTTCATCAAGTTTTGAAAGCATGCATGTTTCCATT
TGCCGCCTTNTTTTCCTTTCCTTTTTTTTGTCC
STS source: Okitsu 46
STS Forward / Reverse: Foward read
STS:
CTGTCGAATTGTGTACGTTTGTAGGAACCCACTGGACCAATTCATCTCAGAGTGGCTATT
TATAGCTAGAACTCAGGACAAGGAGCCATGTGACCTAGCTGAAGCTTTTGAGAGGGCTTG
TAATGGAATCCAGATTTTTGGACCCATTTGGGAACATGCGTTGTGTTACTGGAAAGCCAG
TATAGAACAACCCGATAAGATATTCTTCTTGAAATATGAAGATCTCAAAGAAGATATCGC
CTCTTGCATTAACAGATTGGCCGATTTCTTGGGATGTCCTCTTTCGGAAGAGGAAGTGAC
CCAAGGTGTGGTGGAAGAAATCTCCAAGCTATGTAGTTTTGATTATATCCAAAACTTGGA
AGTCACCAAAACCGGTAGAGCGTACGCAAATGGGGTGAAAAATTCTCACTACTTGAGAAA
AGGTGAAGTT
STS source:
STS Forward / Reverse: Foward read
STS:
GNCCCGCNTGCTTTCTACCCGGTTCCATTCTGAATTCTGGCTGTCGAATTGTGTACGTTT
GTAGGAACCCACTGGACCAATTCATCTCAGAGTGGCTATTTATAGCTAGAACTCAGGACA
AGGAGCCATGTGACCTAGCTGAAGCTTTTGAGAGGGCTTGTAATGGAATCCAGATTTTTG
GACCCATTTGGGAACATGCGTTGGGTTACTGGAAAGCCAGTATAGAACAACCCGATAAGA
TATTCTTCTTGAAATATGAAGATCTCAAAGAAGATATCGCCTCTTGCATTAACAGATTGG
CCGATTTCTTGGGATGTCCTCTTTCGGAAGAGGAAGTGACCCAAGGTGTGGTGGAAGAAA
TCTCCAAGCTATGTAGTTTTGATTATATCCAAAACTTGGAAGTCACCAAAACCGGTAGAG
CGTACGCAAATGGGGTGAAAAATTCTCACTACTTGAGAAAAGGTGAAGTTGGAGANTGGA
AAAATTATTTAACCCCATCGATGTCAGAGCGTTTGGAGAAAATAATCGAAGAAAAGTTGG
CTG
STS source:
STS Forward / Reverse:

Experiments: Restriction fragment profile

Compared cultivars (Left, (Middle), Right): Trovita orange/Kiyomi/Miyagawa-wase
Comment:
Figure legend:
Compared cultivars (Left, (Middle), Right): Frying dragon/Hyuuganatsu
Comment:
Figure legend:

Experiments: CAPS pattern of hybrid cultivar

Resriction enzyme: EcoR1
Rank as CAPS marker: Others
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

Experiments: Segregation pattern

Population name: A255 (Okitsu46gou) x G434 (Kankitsu Chuukanbohon Nou5gou)
Restriction enzyme: EcoR1
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: Jutaro unshu x Trovita orange
Restriction enzyme: EcoR1
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: Kiyomi x Miyagawa-wase
Restriction enzyme: EcoR1
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: Kankitsu Chuukanbohon Nou8gou x Siamese Acidless
Restriction enzyme: Hae3
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: Ciclev10021050m
Scaffold: scaffold_3
Start: 33252463
End: 33253730

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_01571:mRNA_4.1
Scaffold: C_unshiu_01571
Start: 43836
End: 45084
Gene function: Sulfotransferase

AGI map info (Shimada et al. 2014)

AGI LG:
AGI cM:

KmMg map info (Omura et al. 2003)

KmMg LG: KmG-05S
KmMg cM: 42.335

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-05
Rp/Sa cM: 53.076

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:
DNA sequence around SNP1:
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: