Citrus CAPS Marker Database

Locus name: Al0419

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 56
Main product (bp): 1200
Comment on PCR: Additional band (950 bp)
F-primer: AGAGGTTCTAGCAGCGATTTA
R-primer: AACATTCAGACCGCACAC

EST info

EST Accession number 1: C95403
EST Accession number 2: DC892989

sequence-tagged site (STS seq)

STS:
CCCTTTATCGTTGTAATCTCTAGTCCACAGTGCTGATATTTATAGCTTGTTTGCTCTGCA
ACAGGTACCTGTACTCGGGGAGGAATCGGCAAGTAATCCAGAGAGTTCTTCCTTCGAACT
ACCTGTAAATTTAACTGAACCCTTCGTTGACCTCCTACACAACTACCGCAACTTATTTGT
TCCACCTACTACACTGCCGCCGCAACGCACAATTGATCATAAAATCCATCTCCTCCCAAA
CACCACCCCAATAAATGTCCGCCCATATCGCTACCCTTATTTTAAAAAAAATGATATGGA
AAAGCTGATCCATGAAATGTTAGAACAAGGTATCATTCAACCGAGTCAAAGTCCATTTTC
GTCATCGGTCTTGTTGGTAAAGAAAAAAGATGGGACCTATCGCTTCTGTGTTGATAACAG
GGCTTTGAATGCCATTACAATTAAAGATAAATTTCCCATTCCGACTATCGACAAATTATT
TGATGAATTAGGCGAGGCAGCAATTTTTAGCAAACTGGATTTGCAGGCTAGTTACCATCA
AATTCGCGCGCACTACCACGACATTTATAAAACGGACTTTCGCACTCATGAGGGCCACTA
CGAGTTCCTTGTCATGCTGTTTGGTTTAACAAACGCGCCTTCTACTTTCCAAGCTACTAT
GAACCAGATTTTCACTTCTTTTTTGCATAAATTCGTGATTTTGTTTTTTTATGACATTTT
GGTTTACAGTGCTACAACAGAGGAACATTTGCAGCATCTTCAGCAAGTATTGTTGTGCCT
TCATTTTCACAAGTTCTTTGTCAAGCTATCCCAATGCTTGCTTTGCCAAGAAGCTATTGA
TTTCTTGGGCCNCATTATTTCNGCCTCTGGTGGGGGGCCTGA
STS source: Clementine
STS Forward / Reverse: Foward read

Experiments: Restriction fragment profile

Compared cultivars (Left, (Middle), Right): Trovita orange/Kiyomi/Miyagawa-wase
Comment:
Figure legend:
Compared cultivars (Left, (Middle), Right): Frying dragon/Hyuuganatsu
Comment:
Figure legend:
Compared cultivars (Left, (Middle), Right): Shiamese acidless/RP-94
Comment:
Figure legend:

Experiments: CAPS pattern of hybrid cultivar

Resriction enzyme: NC
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

Rsetriction enzyme: NC
Comment:
Figure legend:
CV (No.1 Top) 101 Tahiti, 100 Rangpurlime, 102 Limonia, 104 LisbonL, 99 SweetLime, 92 Hirado, 87 MGF, 85 Kinukawa, 84 Hassaku, 83 Yamamikan, 78 Natsudaidai, 58 Rokugatu, Tr Trovita, 50 WNV, 44 Tankan, 42 Iyo,
(No.1 Bottom) 39 HgNt, 36 Ujukitsu, 32 Kawabata, 30 Shunkokan, 70 Yuzu, 54 Henka, 53 Ichang lemon, 37 Kunenbo, Mg Miyagawa, 31 Yatsushiro, 27 Kabuchii, 26 Ponkan, 25 Medet. 22. Dancy, 14 Tachibana, 11 Hirakishu (26' Ohta ponkan)
(No.2 Top) 6 Cleopatra, 4 CQ, 2 Fukuremikan, FD Hiryuu, 124 Largeleaf, 125 Small leaf, 141 CTV-S, 136 Rubidoaux,
(No.2 Bottom) FD, Hassaku, Km, F1, RP94, SA, 02, 04, 05, 06, 07, 08, 09, 10, 11, 13
BDZ BenDi Zao, SO Shuto, BP Banpeiyu

Experiments: Segregation pattern

Population name: Kankitsu Chuukanbohon Nou8gou x Siamese Acidless
Restriction enzyme: NC
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: NC
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: NC
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: NC
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: Ciclev10005894m
Scaffold: scaffold_9
Start: 2452853
End: 2455181

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00394:mRNA_25.1
Scaffold: C_unshiu_00394
Start: 150531
End: 152208
Gene function: Hypothetical protein

AGI map info (Shimada et al. 2014)

AGI LG: AGI-03
AGI cM: 17.378

KmMg map info (Omura et al. 2003)

KmMg LG: KmG-09
KmMg cM: 9.593

JtTr map info (Omura et al. 2003)

JtTr LG: JtR-09S
JtTr cM: 7.976

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:

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: