Citrus CAPS Marker Database

Locus name: Cp0996

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 900
Comment on PCR:
F-primer: GTGGCTATCTTATTGGCAATC
R-primer: ATCTTGCAGCAAAGCGTAA

EST info

EST Accession number 1: CK938441
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
GGTACCGCAAGACAGAATGAGGGTATTCTGAATTTAATTGAGGCTAAGTGGGATGATCTT
GTTGCTCATATGCCTCTTAAGATCTGTTACCCTGCTTTGGAGTACGAGGAATGGCGAATA
ATCACTGGCGGTGACCCAAAGAACACGTGAGGCTCTTGTTTTGTGCTTTATAACACCCTT
ACCTTTTCATTTGAATAAATTTATTAACACATAGCCTTGATTGCATGCAGTCCATGGTCA
TATCACAATGGTGGATCTTGGCCAACACTCTTATGGCAGGTAGGGATTAAAGTTCTTCAA
G
STS source:
STS Forward / Reverse:

Experiments: Restriction fragment profile

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: 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: A255 (Okitsu46gou) x G434 (Kankitsu Chuukanbohon Nou5gou)
Restriction enzyme: Sty1
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

Target on C. clementina (v1.0)

Transcript ID: Ciclev10004474m
Scaffold: scaffold_9
Start: 543444
End: 546746

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00007:mRNA_105.1
Scaffold: C_unshiu_00007
Start: 630727
End: 633783
Gene function: Neutral/alkaline invertase

AGI map info (Shimada et al. 2014)

AGI LG: AGI-03
AGI cM: 9.366

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: SI340
DNA sequence around SNP1:
TAAGTGGGATGATCTTGTTGCTCATATGCCTCTTAAGATCTGTTACCCTGCTTTGGAGTA
[T/C]GAGGAATGGCGAATAATCACTGGCGGTGACCCAAAGAACACGTGAGGCTCTTGTT
TTGTG
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: