Citrus CAPS Marker Database

Locus name: Al0422

CAPS PCR info

PCR Anneal-Temp (℃) / Method: 56
Main product (bp): 250
Comment on PCR: Amplicon size variant
F-primer: GGCTTGACTGCGGAAGAGG
R-primer: TGAAATTTCAAGGGGCTGAGA

EST info

EST Accession number 1: C95416
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
GAGGCCAGGGGCTCNAGTGCAGGTGGNTCCACCAAGACAGCGTTTGTCACCATGGGATTT
CAGACACNATCGAGTTCGATTATATGTTGATTCCTCTGGAAAAGTTGAGAGCGCGCCCCA
AGCGTTGGCTAATACATACATATATGTATGTATGTATGTATGTATGTATGTATGTACGGA
TGCATGCATTTATGCATGTTCTCAGCCCNTTGAAATTTCAAAG
STS source: Chuukanbohon NO 5
STS Forward / Reverse: Foward read
STS:
CATGCATCCGTCATACATACATACATACATACATACATACATATATGTATGTATTAGCCA
ACGGTATGGGGGCCTCTCAACTTTTCCAGAGGAATCAACATATAATCGAACTCGATTGTG
TCTGAAATCCATGGTGACAAAGACTGTTTGGTGGAACCACCTGCACTTGAGCCCCTGGCC
TCTCTTCCTTTATCTTCTTTTCTGCCTCT
STS source: Chuukanbohon NO 5
STS Forward / Reverse: Reverse read

Experiments: Restriction fragment profile

Experiments: CAPS pattern of hybrid cultivar

Resriction enzyme: NC
Rank as CAPS marker: 3 or more alleleic model
Comment: PCR_condition: 60C aneal
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: Hae3
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
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

Target on C. clementina (v1.0)

Transcript ID: Ciclev10013176m
Scaffold: scaffold_6
Start: 14495473
End: 14496662

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00032:mRNA_34.1
Scaffold: C_unshiu_00032
Start: 369423
End: 370581
Gene function: Subtilisin inhibitor 1, putative

AGI map info (Shimada et al. 2014)

AGI LG: AGI-08
AGI cM: 93.695

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