Citrus CAPS Marker Database

Locus name: Lp0032

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 1200
Comment on PCR:
F-primer: GCTTCTTAAATCGGCTGTG
R-primer: CTAAAAGTCTCAATGCCAAAA

EST info

EST Accession number 1:
EST Accession number 2:

sequence-tagged site (STS seq)

STS:

CCTGATACTTGTCGGCCCAACGCCGTCATTCGCCCGAACCCCACACGTTATCAATTTCCG
CTCACTGAATCTCTACCCAGAGGGTCTGACGTGGGACCCATCAGCCCAGCACTTCATCGT
CGGCTCTCAGCACCATCGCACAATCCACTCCGTCTCCGATGCCGCCGTCGTCGAAACCCT
TATCTCCGACCCAACTCTTCCCGAAAACGCCACCATTTTGGGTCTCGCCATCGACTCAAT
CCACAACCGCCTCCTCGCCCTCGTTCACTCTGCCGCGCCCCTTCCTCCCTTCAATGCCCT
CGCCGCATACGACCTCCGATCGCGCCGCCGCGTCTTCCTGTCTCTACTCGACGACGAAAC
CCCTGGTGTCATAACCATCAAGCGCCACGTGGCGAACGACGTGGCTGTGGATTTCAATGG
GAACGCTTACGTCACGAACT

STS source:
STS Forward / Reverse: Foward read

STS:

TTTGATCTCACTTCCTCTATACTAAACTCCTCTCTTCCCGAATTCCCCAAAAGACCCTCC
ATCACACGCCCATATAACACATACGCCCTATCCTCCCCTCCCACCGTCACCGATGTAGCA
AACTTTTCCTGATTAAGGGCAGTTTTGTCATACACTACTCCCTCGGCCCAACTATCGTGA
GACTTAATAAACCACAACGTGTGATGAGACACCACCAAAACGACGCCGTCGCTTCTAACG
GCTATACCGTCGGCCCAAACCAAATCCTCGGTCAACAAAACCCGCCTAGCCAACCCGTCA
TCCGCGTTGACCTTAAACATCTTGCCCGTATTGGATTGCACCACGAGCAAATACCCCTTG
CTCACGTAAGCTATCCCGTTTAATCCACACTCGCTAAACGGCGCGTCGGGGTCAACCGCC
AAGGGACTCTCGCTGAAAAC

STS source:
STS Forward / Reverse: Reverse read

Experiments: Restriction fragment profile

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

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: no homozygous cultivar with minor allele
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:

Target on C. clementina (v1.0)

Transcript ID:
Scaffold:
Start:
End:

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00679:mRNA_13.1
Scaffold: C_unshiu_00679
Start: 124222
End: 132199
Gene function: CwfJ-like family protein, 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: 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: SI286
DNA sequence around SNP1:

CGCCTAGCCAACCCGTCATCCGCGTTGACCTTAAACATCTTGCCCGTATTGGATTGCACC
[A/G]CGAGCAAATACCCCTTGCTCACGTAAGCTATCCCGTTTAATCCACACTCGCTAAA
CGGCG

SNP2:
DNA sequence around SNP2:

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: