Citrus CAPS Marker Database

Locus name: Ov0306

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 2000
Comment on PCR: PCR unstable
F-primer: GCACAGGAGACCCAAAC
R-primer: CAAAAGCCAATTCAAAATGAT

EST info

EST Accession number 1: AU186465
EST Accession number 2: DC893879

sequence-tagged site (STS seq)

STS:
TGCATGTGAAAGTGATGACTGATGAGCAACTCGAGACTTTGAGGAAGCAGATTGCTGTCT
ATGCTACTATTTGCGAGCAACTTGTTGAGATGCATAAATCACTCTCTGCCCACCAAGATC
TTGCAGCAGCAGGTCTCTTTACTCTCTCTCTTTTTCTGTTATTTTTTTTCT
STS source: Okitsu 46
STS Forward / Reverse: Foward read
STS:
TGTGTAGGCAGAATGATTGGTTTGTTCATATGAAGTTAATTCTCTAATTAAGATTATCAC
ATACCATAAATAAGTGGATATAATAATTATTTTATGAGATTGGAGTTATATACATATATA
TAGGTATGTTTGGAGTTGTTGTACATTGGAATTAATGTCTAGCTGTCAAATAATGGGTGA
CATTGAGGGTGAGAGGTTGCTGGTAAGTACATGTCTAGAGAGAAAGTAAAGCAATTAAAT
TTAGATATCACACATTAGCTGTTGGTTGTTGCGCTTTCAAAATCAAGCACAAGCATGNTA
TAGAGAGTTAGAAACATGACTTTCCCATTGCTTACTGTCTTGTTAATGATGCAACTCTAA
ATTCTAAATGACGGNCTGGTTCTTATTTACNTCCAAACTTACTTGATGATGCAGGAGATG
ATCATTTAACAGGAAAGATGGGTGGAATGCCAGGGAGCTATAATCTTTATGATCATGCAG
AAGACTACAGCATGGCTGGTTGACACTCATTCTGTTCCATTAATCTCTCCGACAAAGCCT
TGTCTATCCAACTATCATGCCGTGATGCTTGAGCTTCATCTTCTTGTTTGATTACACCAA
AACCTAACG
STS source: Okitsu 46
STS Forward / Reverse: Reverse read
STS:
ATGAAGCTCAAGCATCACGGCATGATAGTTGGATAGACAAGGCTTTGTCGGAGAGATTAA
TGGAACAGAATGAGTGTCAACCAGCCATGCTGTAGTCTTCTGCATGATCATAAAGATTAT
AGCTCCCTGGCATTCCACCCATCTTTCCTGTTAAATGATCATCTCCTGCATCATCAAGTA
AGTTTGGATGTAAATAAGAACCAGACCGTCATTTAGAATTTAGAGTTGCATCATTAACAA
GACAGTAAGCAATGGGAAAGTCATGTTTCTAACTCTCTATATCATGCTTGTGCTTGATTT
TGAAAGCGCAACAACCAACAGCTAATGTGTGATATCTAAATTTAATTGCTTTACTTTCTC
TCTAGACATGTACTTACCAGCAACCTCTCACCCTCAATGTCACCCATTATTTGACAGCTA
GACATTAATT
STS source:
STS Forward / Reverse: Reverse read

Experiments: Restriction fragment profile

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

Experiments: CAPS pattern of hybrid cultivar

Resriction enzyme: Dra1
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: Dra1
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: Dra1
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: Dra1
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 Okitsu41gou
Restriction enzyme: Dra1
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: Ciclev10026199m
Scaffold: scaffold_7
Start: 224443
End: 227133

Target on C. unshiu (v1.0)

Transcript ID: No
Scaffold:
Start:
End:
Gene function:

AGI map info (Shimada et al. 2014)

AGI LG: AGI-02
AGI cM: 79.663

KmMg map info (Omura et al. 2003)

KmMg LG: KmG-02
KmMg cM: 72.516

JtTr map info (Omura et al. 2003)

JtTr LG: JtR-02
JtTr cM: 8.671

Km/O41 map info (Nakano et al. 2003)

Km/O41 LG: NAT-02S
Km/O41 cM: 60

Rp/Sa map info (Ohta et al. 2011)

Rp/Sa LG:
Rp/Sa cM:

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: SI382
DNA sequence around SNP1:
AGAGTTGCATCATTAACAAGACAGTAAGCAATGGGAAAGTCATGTTTCTAACTCTCTATA
[T/C]CATGCTTGTGCTTGATTTTGAAAGCGCAACAACCAACAGCTAATGTGTGATATCT
AAATT
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: