Citrus CAPS Marker Database

Locus name: Al0306

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 54
Main product (bp): 1100
Comment on PCR:
F-primer: TCAAAATATAAAACGCCAAAG
R-primer: GCCCTCCAAATAATGCTCT

EST info

EST Accession number 1: C95335
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TTTTTGTTATTGTGCTCTTGAACTTACCGAACAATGGCTCAGGGTAAAGTAATAAATGTA
ATAGATTTTCCATCGGGAGTAAAATTGANTTAATCCCCAAAACAAGGTCAGAAGATTTGA
ATAATCATTTTAACTGCTTGCTAGTTAAACACAGGACCAAATAGTGCCCGANTAAAAAAC
AATATGAATATTTGTAGGATTCAAACGGGTCACCTTCTGTAAGACACAGGTACTATCCCA
GCTTTGTACTGAGCAATTTGTTCAAACACAGGCTGAGAGAGGTCAAAATGTGGNTGGGGA
GGATGCACC
STS source: Okitsu 46
STS Forward / Reverse: Reverse 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: Nde2
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: Jutaro unshu x Trovita orange
Restriction enzyme: Mbo1
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 Miyagawa-wase
Restriction enzyme: Mbo1
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: Ciclev10021897m
Scaffold: scaffold_3
Start: 7337405
End: 7339222

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00199:mRNA_11.1
Scaffold: C_unshiu_00199
Start: 77240
End: 79028
Gene function: Expansin

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-05
JtTr cM: 23.944

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: SI029
DNA sequence around SNP1:
TTGACCTCTCTCAGCCTGTGTTTGAACAAATTGCTCAGTACAAAGCTGGGATAGTACCTG
[T/C]GTCTTACAGAAGGTGACCCGTTTGAATCCTACAAATATTCATATTGTTTTTTA
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: