Citrus CAPS Marker Database

Locus name: Gn0069

CAPS PCR info

PCR Anneal-Temp (℃) / Method: Td
Main product (bp): 1200
Comment on PCR:
F-primer: AGCATTACGGAATCTACCAGT
R-primer: ATTCCCAATCTCTCTAACCTT

EST info

EST Accession number 1: AB114655
EST Accession number 2:

sequence-tagged site (STS seq)

STS:
CTCCTAATTTATTATTTTAGGCTTGCTACTGTTGCTTCTGGAGCAGCATCAGGGAAGCTA
TTGGAATATGAGGTGGGGGGTCCCAAAGTTTCTGTCCAAACAGCTTATGGTGTGGAGGTT
GAGGTATGAGTATACAATTTCCTATCTAAATTACTGCACTGTTTAGTTATTGGTTTATGA
TTTTCTGCATCACACTCTTACTGCATTGCGAATTTACATTTTGTCCAGATTTGGATTTGC
CTACAGTTGTGTATACCACAGAAGTTTTTTTCTTTCTTTTAATTGGTTATGCCTTTTTCT
CCTTTTCCACCTTCATGGGAAAATCATTAGGCGCTACTCTTTACTTTGTTATAAGTGGAA
TCCACCAAATTATTTAGTTGTTCGTTAAAAGAACATGAAAACTATCACGAGTATGTTTGT
ATATCATTAGAAGTATTGTACTTTGTACACTTCACCTTGCTGTGAAATTGAGTTGCGCAA
CTGTGATGATCTCCTTTTTC
STS source:
STS Forward / Reverse:

Experiments: Restriction fragment profile

Compared cultivars (Left, (Middle), Right): A255(Okitsu46gou)/G434(Kankitsu Chuukanbohon Nou5)
Comment:
Figure legend:
Compared cultivars (Left, (Middle), Right): Frying dragon/Hyuuganatsu
Comment:
Figure legend:

Experiments: CAPS pattern of hybrid cultivar

Resriction enzyme: EcoR1
Rank as CAPS marker: Less informative for main cultivars
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: Rsa1
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)

Experiments: CAPS pattern of Citrus collection

Rsetriction enzyme: EcoR1
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: Ciclev10008410m
Scaffold: scaffold_1
Start: 10946316
End: 10949617

Target on C. unshiu (v1.0)

Transcript ID: C_unshiu_00201:mRNA_19.1
Scaffold: C_unshiu_00201
Start: 212151
End: 227232
Gene function: Lycopene epsilon cyclase

AGI map info (Shimada et al. 2014)

AGI LG: AGI-01
AGI cM: 57.863

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: SI086
DNA sequence around SNP1:
AGGCGCTACTCTTTACTTTGTTAT[A/G]AGTGGAATCCACCAAATTATTTAGTTGTTCG
TTAAAAGAACATGAAAACTATCACGAGTA
SNP2: SI375
DNA sequence around SNP2:
TAGTTATTGGTTTATGATTTTCTGCATCACACTCTTACTGCATTGCGAATTTACATTTTG
[T/C]CCAGATTTGGATTTGCCTACAGTTGTGTATACCACAGAAGTTTTTTTCTTTCTTT
TAATT
SNP3:
DNA sequence around SNP3:
SNP4:
DNA sequence around SNP4: