Citrus CAPS Marker Database

Locus name: Bf0200

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 1600
Comment on PCR:
F-primer: AAAACAGCACCTCGCACAAT
R-primer: GTGACTGTCCGGTTGAAAACA

EST info

EST Accession number 1: DC886299
EST Accession number 2: DC886300

sequence-tagged site (STS seq)

STS:
TAACATGGAATCTGGCACAATTATGCATCTTGACGCCAAAAGATGGCCTGATGCTCAAGC
AGATGATGCATCAGCTTTCTACAAGGTGATTTTTGAATAAAAAGCTAAATTCCAATCTTC
TATTTCAAGAGGGGAAAATGATTTTTAAAATTTATCTAAGTCTGCATGATTTGGCTGCTG
CATTTAAGAATTTGAGCTCAAATTTTCTTTTGGTGACATGTGAAAAGAAGTTTCTGGTTC
ATGCTAACCGGACAGCAGTTTGGTTGAATTTTGTATTGATTAGAATATTTATCTACGGTT
GTATTTCACTCTTCAGTTCTGTTAGAGATTTATGAATATCATTAACAAGACTTGCTTCAA
GCTTGTTGTGAGCATCTTATCTTCATTTGAATTGGCTGCACATTTGATATTTCAATCATA
ACTGATCTT
STS source:
STS Forward / Reverse:

Experiments: Restriction fragment profile

Compared cultivars (Left, (Middle), Right): A255(Okitsu46gou)/G434(Kankitsu Chuukanbohon Nou5)
Comment:
Figure legend:

Experiments: CAPS pattern of hybrid cultivar

Resriction enzyme: Msp1
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: Kankitsu Chuukanbohon Nou8gou x Siamese Acidless
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: 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: Ciclev10014367m
Scaffold: scaffold_2
Start: 29022433
End: 29030724

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00022:mRNA_44.1
Scaffold: C_unshiu_00022
Start: 308324
End: 316293
Gene function: Glutamine-tRNA ligase / glutaminyl-tRNA synthetas, putative isoform 1

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:

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: SI335
DNA sequence around SNP1:
AAAATTTATCTAAGTCTGCATGATTTGGCTGCTGCATTTAAGAATTTGAGCTCAAATTTT
[C/G]TTTTGGTGACATGTGAAAAGAAGTTTCTGGTTCATGCTAACC
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: