Citrus CAPS Marker Database

Locus name: Ks9011

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 2200
Comment on PCR:
F-primer: ACTCTCGACTTCGCTCTCA
R-primer: GCAACATCCCCATAATCTAAC

EST info

EST Accession number 1: DC893082
EST Accession number 2: DC893083

sequence-tagged site (STS seq)

STS:

CACGGCATCGACTCAACGGGGAGGTACAACGGCGACAACGACCTGCAGTTGGAGAGAGTG
AATGTTTACTACAACGAAGCGAGCTGCGCGGCGGTTTGTGCCACGCGCCGTCCTCATGGA
TCTGGAGCCAGGGACCATGGACAGCGTCAGATCCGGGCCGTACGGGCAGATTTTCAGGCC
CGACAACTTCGTTTTCGGGCAGTCCGGGGCCGGAAATAACTGGGCCAAAGGTCACTACAC
TGAAGGCGCTGAGTTGATTGACTCCGTGCTTGATGTTGTTCGCAAGGAAGCTGAGAACTG
TGACTGCTTGCAAGGTACTTTTTAGTGGAAGTACTTTTTGTATAACGTGTTTTTTGGTCA
AGGCTTGTTTGGAATTTTAAAACTTGATTTTGCTTAAAAAAACGAACTAAAAATAGTGGA
TCTACGTGTATTGATTATTTTGAAGAAAATTGGAGTTCTGTTACCTGAATTATGTCACAG
ATGCATTCAGTTAAGGCCTTGTTTGGACGGAGTTTTATTTCATTGTTGAA

STS source:
STS Forward / Reverse: Foward read

STS:

AGGAAGCCAGTATTACCTCGTTTACCGACCATCAGCAGAAGTGAAAGACTCAGCGAAACC
AGTTGGTCTTGCTGGTATACTACTTTTGCTGTCTTCTAGAGACACATAACTTAAGTCTTT
ACCTTCTGCTTCCTGCCAGTCTTTCACCATTTGGTTTAGAGGGAGACTGTAATCAATTCC
GCTGTATTCCTCTGGTTCGTCATCCAATGGTTTCCATTTTTCAACAAGTGGTGCCAGTAC
ATTCACCGCATGACCCATATCTGGCCGTTGAGATGGTTCTCTAGATGTGCAGTGTCCAGC
CAGTTCAGCAATGGTCCAGAAAGTCTCAAATGTGTCATCATTCACTTCTAGGATCGGGTC
TATGGCAGCCCTCAGCTTCTCCTTGTCTGACTTTATGTTCC

STS source:
STS Forward / Reverse: Foward 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: Hha1
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: Kiyomi x Miyagawa-wase
Restriction enzyme: Hha1
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: Hha1
Comment:
Figure legend:

Population name: A255 (Okitsu46gou) x G434 (Kankitsu Chuukanbohon Nou5gou)
Restriction enzyme: Hha1
Comment:
Figure legend:

Target on C. clementina (v1.0)

Transcript ID: Ciclev10004755m
Scaffold: scaffold_9
Start: 28984972
End: 28989373

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00045:mRNA_79.1
Scaffold: C_unshiu_00045
Start: 556440
End: 562091
Gene function: Tubulin

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: JtR-032
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:
DNA sequence around SNP1:

SNP2:
DNA sequence around SNP2:

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: