Citrus CAPS Marker Database

Locus name: Lp0019

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 58
Main product (bp): 1800
Comment on PCR: Additional band (850 bp)
F-primer: CAACGCAGCGAAGCAG
R-primer: TGGCAAAGTGAAAATAGATGG

EST info

EST Accession number 1: DC893138
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
TCCAATGGGAGAGAGGTGTGATCCTTGGANAGNCTTNGGAGTTGTCGTCATGGGATNTAA
GGTGATTCCGTTGTTGAGAAGGAGAAGAGGAGGGTAAGAGAGGACAGGGTCATACAAATT
TGGTAGCTCGTCCACTCCACAANGAATAAGTTTAAGCGTGCAATCTGGAGTTGAACTGCG
GGGAGTTATAAAACTATTGTACAATAAACTCAATACAATAGCATTTCCTTCACAATGTTC
ATGTGGCACTTAAATGTCTTCCATACTTCACAAACCAACAACTGTGAGGAGTAAGTTAAG
CTAGCAGCCCTAGAATGTGCATGTGGTGCCTTTGTGTCAGTGATGAGTATCTCCTTCTTC
CTTTCTTGTTCTTTCCTCGTATATTTCCTTAATTCTTTACCATCGACTGAATGCAGTTTG
TTGATTTCAGATTTCTTAGTTGCACGTTTAATCTTAATTTAGATATGATAAGACCCACCT
TAATTGACAGTGTAAACTCTTTATCCTTGCTTTCTGGCTTGATCACATTGACCGAGTAGA
CTACTGTTTCTTTATTTTGTAACTCGTGTATGAAATTCTACGGGAACGTTTGAGACTTTG
CGTCTTTGCACACNTNCCAAC
STS source: Chuukanbohon NO 5
STS Forward / Reverse: Reverse read
STS:
GCAAAGTCTCAAACGTTCCCGTAGAATTTCATACACGAGTTACAAAATAAAGAAACAGTA
GTCTACTCGGTCAATGTGATCAAGCCAGAAAGCAAGGATAAAGAGTTTACACTGTCAATT
AAGGTGGGTCTTATCATATCTAAATTAAGATTAAACGTGCAACTAAGAAATCTGAAATCA
ACAAACTGCATTCAGTCGATGGTAAAGAATTAAGGAAATATACGAGGAAAGAACAAGAAA
GGAAGAAGGAGATACTCATCACTGACACAAAGGCACCACATGCACATTCTAGGGCTGCTA
GCTTAACTTACTCCTCACAGTTGTTGGTTT
STS source: Chuukanbohon NO 5
STS Forward / Reverse: Reverse read
STS:
CAAACGTTCCCGTAGAATTTCATACACGAGTTACAAAATAAAGAAACAGTAGTCTACTCG
GTCAATGTGATCAAGCCAGAAAGCAAGGATAAAGAGTTTACACTGTCAATTAAGGTGGGT
CTTATCATATCTAAATTAAGATTAAACGTGCAACTAAGAAATCTGAAATCAACAAACTGC
ATTCAGTCGATGGTAAAGAATTAAGGAAATATACGAGGAAAGAACAAGAAAGGAGAAAGG
AGATACTCATCACTGACACAAAGGCACCACAT
STS source: Chuukanbohon NO 5
STS Forward / Reverse: Reverse read
STS:
CTTCCTCAAGCTCTCTTTCACGTTTAACATGTAAGCATGCGAGCAATCTTTCTAATAGAA
AAAGTAAATGATCTAATTAGTAAGATAATAAGACACTGATACCCGAGGTTGGTAGTGTGC
AAAGAGCAAAGTCTCAAAGTTCCCGTAGAATTTCATACACGAGTTACA
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:
Compared cultivars (Left, (Middle), Right): A255(Okitsu46gou)/G434(Kankitsu Chuukanbohon Nou5)
Comment:
Figure legend:

Experiments: CAPS pattern of hybrid cultivar

Resriction enzyme: EcoR1
Rank as CAPS marker: Disagree by Marco analysis
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: EcoR1
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: EcoR1
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 Okitsu41gou
Restriction enzyme: EcoR1
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: Ciclev10026623m
Scaffold: scaffold_7
Start: 20922631
End: 20924709

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00622:mRNA_2.1
Scaffold: C_unshiu_00622
Start: 28630
End: 30583
Gene function: 50S ribosomal protein L29, chloroplastic

AGI map info (Shimada et al. 2014)

AGI LG:
AGI cM:

KmMg map info (Omura et al. 2003)

KmMg LG: KmG-02
KmMg cM: 4.377

JtTr map info (Omura et al. 2003)

JtTr LG: JtR-02
JtTr cM: -6.938

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:
DNA sequence around SNP1:
SNP2:
DNA sequence around SNP2:
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: