Citrus CAPS Marker Database

Locus name: Gn0005

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 2000
Comment on PCR:
F-primer: GGCTGCCGATGATGATGAGT
R-primer: GGAGTGACCATTTGGGTGTGC

EST info

EST Accession number 1: AB011797
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TACTTAGAAAGCAGCAACACGTTCAAGTCTTTATTCAATATTACCATACCGTAGGAGTGA
ACATTTGGGTGTGCGTTCATGGCATCAAGAGGGGGCTTCCTTCCTTGATGAAAACAAAGA
CGCTGCCAGCATCTGCCCTTGAAATCCGAAGATCTTCATCAAGGTATGTGGTTAGCAACC
ATGATTGAGCATTGCTGTTAGAGATAGAGAACTTCAAAGGTGGTTGGCTAGAAATGGTCT
TTGCAACAGATGAAGCTGTGTCTTGGACTGAAGAGAGTATGCCTTTGAAGGGTGAGAGAT
CAATCTTTTGTCCCAAGAATTCNACATTTTCCGGTATCACTAGTGAATCAGTTACCTGAG
GNGTCCCAATGATACCTTCCTCGAACTTG
STS source: Clementine
STS Forward / Reverse:
STS:
CTTTATTCNATATTACCATACCGTAGGAGTGAACATTTGGGTGTGCGTTCATGGCATCAA
GAGGGGGCTTCCTTCCTTGATGAAAACAAAGACGCTGCCAGCATCTGCCCTTGAAATCCG
AAGATCTTCATCAAGGTATGTGGTTAGCAACCATGATTGAGCATTGCTGTTAGAGATAGA
GAACTTCAAAGGTGGTTGGCTAGAAATGGTCTTTGCAACAGATGAAGCTGTGTCTTGGAC
TGAAGAGAGTATGCCTTTGAAGGGTGAGAGATCAATCTTTTGTCCCAAGAATTCGACATT
TTCCGGTATCACTAGTGAATCAGTTACCTGAGGNGTCCCAATGATACCNTCCTCGAACN
STS source: Clementine
STS Forward / Reverse:

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: Hae3
Rank as CAPS marker: Others
Comment:
Figure legend: DNA sample: Lane 2'=Ethlog citron, 23'=Duncan GF, Hrd=Hirado buntan, HgNt = Hyuuganatsu
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)
Resriction enzyme: Hind3
Rank as CAPS marker: Disagree by Marco analysis
Comment:
Figure legend: DNA sample: Lane 2'=Ethlog citron, 23'=Duncan GF, Hrd=Hirado buntan, HgNt = Hyuuganatsu
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: Kiyomi x Okitsu41gou
Restriction enzyme: Hind3
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: Ciclev10015934m
Scaffold: scaffold_2
Start: 35693249
End: 35696515

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00337:mRNA_13.1
Scaffold: C_unshiu_00337
Start: 68883
End: 71725
Gene function: Fibrillin

AGI map info (Shimada et al. 2014)

AGI LG: AGI-06
AGI cM: 16.857

KmMg map info (Omura et al. 2003)

KmMg LG: KmG-06
KmMg cM: 63.84

JtTr map info (Omura et al. 2003)

JtTr LG:
JtTr cM:

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

Km/O41 LG: NAT-06S
Km/O41 cM: 59.976

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: