NAU4058, NAU4058 (genetic_marker) Gossypium raimondii

Marker Overview
NameNAU4058
Genbank IDCO130626
TypeSSR
SpeciesGossypium raimondii
Source TypeEST
Repeat Motif(aag)12
PCR ConditionAnnealing temperature: 57
Primer 1NAU4058_F: CCTCTCTCTTTGGCTCTACG
Primer 2NAU4058_R: CGCATTTCTATTCTCCTCCT
Restriction EnzymeNotI; EcoRV
Publication[view all]
ContactZhang, Tian-Zhen
CommentPrimer data obtained in 2007-05
Contact
NameDetails
Zhang, Tian-Zhen
First name:Tian-Zhen
Last name:Zhang
Title:Professor
Institution:Zhejiang University
Address:College of Agriculture and Biotechnology, Zhejiang University, Hangzhou , 310058 , Zhejiang , China
Country:China
Email:cotton@zju.edu.cn
Phone:+86 571 88982971
Fax:+86 571 88982971
Keywords:cotton genetics and genomics, and breeding
Last update:18-Mar-2022
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankCO130626
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D04chromosomeD04:3784325..3784534 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018206.1chromosomeCM018206.1:98930766..98930978 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018218.1chromosomeCM018218.1:3209132..3209365 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_04chromosomeD5_04:46940643..46940868 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
CM016617.1chromosomeCM016617.1:4633780..4633983 -Gossypium australe (G2) genome CRI_v1.1n/a
At_chr9chromosomeAt_chr9:55982703..55982915 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr9chromosomeAt_chr9:57114969..57115182 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold77834supercontigscaffold77834:296..508 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D04chromosomeGhir_D04:3392428..3392640 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D04chromosomeD04:3412798..3413010 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D04chromosomeD04:3257857..3258069 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D04chromosomeD04:3092243..3092455 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold12118supercontigscaffold12118:4782..5012 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold12118supercontigscaffold12118:2363..2893 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold4762supercontigscaffold4762:78855..79067 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A05chromosomeGbar_A05:99026379..99026591 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D04chromosomeGbar_D04:3182775..3183005 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A05chromosomeA05:103916617..103916829 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
D04chromosomeD04:3221768..3221998 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017626.1chromosomeCM017626.1:3318843..3319055 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017704.1chromosomeCM017704.1:3416357..3416581 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D04chromosomeD04:3746060..3746272 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr04chromosomeChr04:3865576..3865791 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr04chromosomeChr04:3840225..3840437 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr04chromosomeChr04:47372967..47373192 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr12chromosomeChr12:3388703..3388906 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_12chromosomeChr_12:2521213..2521416 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr12chromosomeChr12:3369856..3370061 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr12chromosomeChr12:3242011..3242217 -Gossypium lobatum (D7) genome ISU_v1n/a
F04chromosomeF04:3414014..3414223 -Gossypium longicalyx (F1) genome NSF_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1AD-genome wide Reference Map (2009)AD_ch22_Dt.04N/A28NAU4058View
2AD-genome wide Reference Map (2009)AD_ch05_At.05N/A313NAU4058View
3Zhongmiansuo-12 x 8891, RIL (2007)AD_ch05_At.05N/A56.6NAU4058View
4Emian-22 x 3-79, BC1 (2011)AD_ch22_Dt.04N/A139.63NAU4058View
5(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch05_At.05N/A33.7NAU4058View
6Yumian-1 x 7235, RIL (2015)AD_ch05_At.05N/A111.5NAU4058View
7(86-1 x G. anomalum) x Su8289, BC2F1 (2015)ABD_Bh.04N/A83NAU4058View
8CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch22_Dt.04N/A123.6NAU4058View
9SG 747 x Giza 75, BIL (2013)AD_ch22_Dt.04N/A7.3NAU4058View
10TM-1 x Hai-7124, BC1 (2007)AD_ch22_Dt.04N/A17.7NAU4058-230View
11TM-1 x Hai-7124, BC1 (2008)AD_ch22_Dt.04N/A17.53NAU4058-230View
12TM-1 x Hai-7124, BC1 (2012)AD_ch22_Dt.04N/A104.6NAU4058-230View
Sequence
>NAU4058 ID=NAU4058; Name=NAU4058; organism=Gossypium raimondii; type=genetic_marker; length=226bp
CCTCTCTCTTTGGCTCTACGAATTTCAAACTTAATTTCGTTATTGGTTTT
TTTTGTTTTGCCTAGGGTTTTTGTTAAAATTTAAAAATCCAAAGAAGATT
CAAAGAAGGTAGGAGAGAAAGACAACGAGGGAGAAGTGGCATAGACGGAG
ACCAAAATTTATGAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGA
AGGAGTAGGAGGAGAATAGAAATGCG