Citrus CAPS Marker Database

Locus name: Al0416

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 1200
Comment on PCR: Multiple bands
F-primer: GACCACCACCGGACACTTGAT
R-primer: TTCTTCTTGGCTGCGGACTTG

EST info

EST Accession number 1: C95397
EST Accession number 2: DC892986

sequence-tagged site (STS seq)

STS:

TTACAGCAGCAAATCATCTGCTTCACACCAAGGGTGAAAGCAAGCAAAGCATGCTCTCGA
GTCTGACCATCCTTGGAGATACCAGCTTCAAAACCACCGGTGGTGGAGTCAATGATAAGG
ACGGCACAGTCAGCCTGTGAGGTACCGGTAATCATGTTCTTGATAAAGTCACGATGTCCG
GGAGCATCAATGACGGTGCAGTAGTACTTGGTGGTCTCGAACTTCCACAAGGCAATATCA
ATGGTAATACCACGTTCACGCTCAGCCTTGAGCTTGTCGAG

STS source:
STS Forward / Reverse: Foward read

STS:

CAACCATGGGCTTGGTGGGAATCATCTTAACCATTCCAGCATCTCCATTCTTCAAGAACT
TGGGCTCCTTCTCAAGCTCCTTGCCTGATCGCCTATCAATCTTCGTCACGAGCTCAGAAA
ACTTGACGGCAATGTGGGAGGTGTGGCAGTCAAGCACTGGGGCATATCCATTTCCAATCT
GGCCAGGGTGGTTCATGATGATGACCTGTGAGGTGAAGTTGGCAGCTTCCCTGGCCGGAT
CATCCTTCGAGTTGGAAGCAACAAAACCACGCTTGAGATCCTTGACAGCAACGTTCTTCA

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: 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: 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

Population name: Jutaro unshu x Trovita orange
Restriction enzyme: Msp1
Comment:
Figure legend:

Population name: Kiyomi x Okitsu41gou
Restriction enzyme: Msp1
Comment:
Figure legend:

Target on C. clementina (v1.0)

Transcript ID: Ciclev10028443m
Scaffold: scaffold_8
Start: 22316999
End: 22319482

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00639:mRNA_12.1
Scaffold: C_unshiu_00639
Start: 90698
End: 99467
Gene function: Elongation factor 1-alpha

AGI map info (Shimada et al. 2014)

AGI LG: AGI-08
AGI cM: 23.023

KmMg map info (Omura et al. 2003)

KmMg LG:
KmMg cM:

JtTr map info (Omura et al. 2003)

JtTr LG: JtR-07
JtTr cM: 60.405

Km/O41 map info (Nakano et al. 2003)

Km/O41 LG: NAT-082
Km/O41 cM: 21.126

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:
DNA sequence around SNP1:

SNP2:
DNA sequence around SNP2:

SNP3:
DNA sequence around SNP3:

SNP4:
DNA sequence around SNP4: