Citrus CAPS Marker Database

Locus name: Mf0012

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 56
Main product (bp): 1000
Comment on PCR:
F-primer: TCGGCACGAGCAGAAAAGTTC
R-primer: AAATTAGCCCTTTCATTTCTT

EST info

EST Accession number 1: C81631
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
AAACAGAGATATGGAACTTAAAAGTCAATCACAAGGTCTTCTATGGTAGTGTAATGTATG
CATGTATACTCAACAAAATTAGCGAGTTGACTCTCAGAAACAAATTTGTACATATATCTA
GAGTCATTACTGGTTCAGAACACTTGGAATGAGTTTCCTATTATATGGCCATTGTTTGGT
AGGATTCAGGTAACAAGAGAAGAGATGGAAAAATATTGAGTCNCCTAAGAAAATTTATGA
TCAATTTTTTTCTTTTCCTTAGTAGTTGAGAAATGGAGTTTCCNTCTTTTTGCCTCTGTT
CCAATTTTCATTTGTCCTTCCGTTTTGATAAGTTTTCACTCATTAAGCTTAGCCATGGAA
TATTTGGTTTGTTTATTGTGCTTTTCTCGCTGATTAAAGAATTTAGGCATCATTGTATTT
AAGACGTTTGGCTTTTGTTGCAGTGGCTGAGGGAGGCATCTGAAGAAAAANATTGAAAAG
TAGTTTTGTCATTCAGCGAGCTGCATTATTGGCTAGGAACGAGATTTGTC
STS source: Okitsu 46
STS Forward / Reverse: Foward read
STS:
ATACTTCCCGAGCAAATTTATATTTCGAGCCCATGGTGGGAAAAGAAATGCAAGATTCTG
ATGAGGCGAGAAATTGATACACAATCTAATCGANCAACAAGTCTTAGCACATATGCGGGA
CTTCTGATAAGAAACTAAAAGATTTCATAGTGATAAAGATTTAAAACAGAGATATGGAAC
TTAAAAGTCAATCACAAGGTCTTCTATGGTAGTGTAATGTATGCATGTATACTCAACAAA
ATTAGCGAGTTGACTCTCAGAAACAAATTTGTACATATATCTAGAGTCATTAGTGGTTCA
GAACACTTGGAATGAGTTTCCTATTATATGGCCATTGTTTGGTAGGATTCAGGTAACAAG
AGAAGAGATGGAAAAATATTGAGTCNCCTAAGAAAATTTATGATCAATTTTTTTCTTTTC
CTTAGTAGTTGAGAAATGGAGTTTCCNTCTTTTTGCCTCTGTTCCAATTTTCATTTGTCC
TTCCGTTTTGATAAGTTTTCACTCATTAAGCTTAGCCATGGAATATTTGGTTTGTTTATT
GTGCTTTTCTCGCTGATTAAAGAATTTAGGCATCATTGTATTTAAGACGTTTGGCTTTTG
TTGCAGTGGCTGAGGGAGGCATCTGAAGAAGAAGATTGAAAAGTAGTTTTGTCATTCAGC
GAGCTGCATTATTGGCTAGGAAACGAGATTTTGTCAATGGTCTTGGTCTTTATTGTTGTG
ATATATCCGTACTAAATTTTTCATGAGGAAANG
STS source: Okitsu 46
STS Forward / Reverse: Reverse read
STS:
TATCACAACAATAAAGACCAAGACCATTGACAAAATCTCGTTTCCTAGCCAATAATGCAG
CTCGCTGAATGACAAAACTACTTTTCAATCTTCTTCTTCAGATGCCTCCCTCAGCCACTG
CAACAAAAGCCAAACGTCTTAAATACAATGATGCCTAAATTCTTTAATCAGCGAGAAAAG
CACAATAAACAAACCAAATATTCCATGGCTAAGCTTAATGAGTGAAAACTTATCAAAACG
GAAGGACAAATGAAAATTGGAACAGAGGCAAAAAGAGGAAACTCCATTTCTCAAC
TACTAAGGAAAAGAAAAAAATTGATCATAAATTTTCTTAGGAGACTCAATATTTTTCCAT
CTCTTCTCTTGTTACCTGAATCCTACCAAACAATGGCCATATAATAGGAAACTCATTCCA
AGTGTTCTGAACCACTAATGACTCTAGATATATG
STS source:
STS Forward / Reverse: Reverse read

Experiments: Restriction fragment profile

Compared cultivars (Left, (Middle), Right): Miyagawa-wase/Trovita orange
Comment:
Figure legend:
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: Rsa1
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

Experiments: Segregation pattern

Population name: Kankitsu Chuukanbohon Nou8gou x Siamese Acidless
Restriction enzyme: NC
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: NC
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: Ciclev10019300m
Scaffold: scaffold_3
Start: 26517176
End: 26525778

Target on C. unshiu (v1.0)

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

AGI map info (Shimada et al. 2014)

AGI LG:
AGI cM:

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: SI131
DNA sequence around SNP1:
AATGAGTGAAAACTTATCAAAACGGAAGGACAAATGAAAATTGGAACAGAGGCAAAAAGA
[A/C]GGAAACTCCATTTCTCAACTACTAAGGAAAAGAAAAAAATTGATCATAAATTTTC
TTAGG
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: