Citrus CAPS Marker Database

Locus name: Vs0014

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 54
Main product (bp): 900
Comment on PCR:
F-primer: TATCACCAAAGGAAAACG
R-primer: CAATATAGATAAAAGTCT

EST info

EST Accession number 1: C21868
EST Accession number 2:

sequence-tagged site (STS seq)

STS:

TAATTAACTAGCCATGGATCTGCAACAGACCCAGTTAAGGATTCGGAGAAGCAGCCATGG
CTGGTTTTTATTTTACAAACAAAAGCTCATAAAAAGACATCCAACAAAGCCAACCACAAA
CGATAAATAGTTCTTTTTATTGATACTATAATTTAAACGACCTCACAGCGCTGCTTTATT
CTGGGGCATGTTCACGTCTCGTAGTCTTCATTAACAGTTACAAGGGTCGCACTTGCAGTT
TGGTCCACACTTGCAGCCGCAGCCGCCCTCGGCTCCGAATCCCATCTCCGACCCCTCAGA
GTGCCTGATCCCAAGGAGGGAAAAAAATTTTAAAAAAAATCAAATACAGTCCAAACCTAT
CCATCATTTGGGTCCCTGAATTTATATAAAAACAAAAATAATGACACCGTTTGGATTCCT
TTTCCATGCAGGCTAATGTAACGTCAGATTGCTTTAAATCTGTTAAATAAAAATCAATAA
TTTAAAACACAGTTCTGTAACGACTGCACATTTACGTACA

STS source:
STS Forward / Reverse: Combined sequence of both reads

STS:

GTCCNGAGACACTTAATGATTAATTAACTAGCCATGGATCTGCAACAGACCCAGTTAAGG
ATTCGGAGAAGCAGCCATGGCTGGTTTTTATTTTACAAACAAAAGCTCATAAAAAGACAT
CCAACAAAGCCAACCACAAACGATAAATAGTTCTTTTTATTGATACTATAATTTAAACGA
CCTCACAGCGCTGCTTTATTCTGGGGCATGTTCACGTCTCGTAGTCTTCATTAACAGTTA
CAAGGGTCGCACTTGCAGTTTGGTCCACACTTGCAGCCGCAGCCGCCCTCGGCTCCGAAT
CCCATCTCCGACCCCTCAGAGTGCCTGATCCCAAGGAGGGAAAAAAATTTTAAAAAAAAT
CAAATACAGTCCAAACCTATCCATCATTTGGGTCCCTGAATTTATATAAAAACAAAAATA
ATGACACCGTTTGGATTCCTTTTCCATGCAGGCTAATGTAACGTCAGATTGCTTTAAATC
TGTTAAATAAAAATCAATAATTTAAAACACAGTTCTGTAACGACTGCACATTTACGTACA
TCTTGACAGGAGCAACACCGAGGACGAGGGTCTCGGTGGCTACGGTGGTGCTCTCAAAGG
ATCTCAAGTCAGGGTACATGGAGCTACTGCATGTCCAAAAACGAATTAA

STS source: Okitsu 46
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: NC
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: 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

Population name: Kiyomi x Okitsu41gou
Restriction enzyme: NC
Comment:
Figure legend:

Target on C. clementina (v1.0)

Transcript ID:
Scaffold:
Start:
End:

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00375:mRNA_10.1
Scaffold: C_unshiu_00375
Start: 50515
End: 51680
Gene function: Metallothionein

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:
DNA sequence around SNP1:

SNP2:
DNA sequence around SNP2:

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: