Citrus CAPS Marker Database

Locus name: Gn0008

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 650
Comment on PCR:
F-primer: CCGGCCAAGTCAGCATTTCAT
R-primer: ATGGGGACGGGAACTGGTATG

EST info

EST Accession number 1: AB046992
EST Accession number 2:

sequence-tagged site (STS seq)

STS:

AGAGATTAGAGAAATTGGTGGGAGTTCCAGTCATCAACATCCACATATGGTTAGTGCAAT
GAATTCAATGCTTGCTAAAATGTAATATGATGATAATCCTACATCACAGGTTTTGAATTA
GATAGTGTCTACAAATACTGTGATGGTTTGCCTGAAAATTCCAGTGAATGGAAGAGAATA
AGTTGGTCACGTGTGAAGTTTCTTGTAATATCTGAAATGGTATGAAAATGCAAGTACTGA
AGTAACAAGGA

STS source:
STS Forward / Reverse:

Experiments: Restriction fragment profile

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

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

Experiments: CAPS pattern of hybrid cultivar

Resriction enzyme: Hinc2
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

Target on C. clementina (v1.0)

Transcript ID: Ciclev10005632m
Scaffold: scaffold_9
Start: 17789634
End: 17793258

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00098:mRNA_1.1
Scaffold: C_unshiu_00098
Start: 5120
End: 17442
Gene function: Phytoene desaturase

AGI map info (Shimada et al. 2014)

AGI LG: AGI-03
AGI cM: 46.274

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: SI176
DNA sequence around SNP1:

GAATTAGATAGTGTCTACAAATACTGTGATGGTTTGCCTGAAAATTCCAGTGAATGGAAG
[A/T]GAATAAGTTGGTCACGTGTGAAGTTTCTTGTAATATCTGAAATGGTATGAAAATG
CAAGT

SNP2:
DNA sequence around SNP2:

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: