NAU2942, NAU2942 (genetic_marker) Gossypium raimondii

Marker Overview
NameNAU2942
Genbank IDCO085820
TypeSSR
SpeciesGossypium raimondii
Source TypeEST
Repeat Motif(tc)17tn(tc)5
PCR ConditionAnnealing temperature: 57
Primer 1NAU2942_F: GGTAAAGAGGGAACCAACAA
Primer 2NAU2942_R: AGCAGAAGAGAAGTCGAGGA
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:genbankCO085820
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:5513401..5513629 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A05chromosomeA05:6066059..6066273 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:5036775..5036989 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:5929184..5929398 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:4832836..4833077 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_05chromosomeKI_05:4443478..4443708 -Gossypioides kirkii genome ISU_v3n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:5989742..5989956 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:55655662..55655888 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016626.1chromosomeCM016626.1:8682079..8682317 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr9chromosomeDt_chr9:64132857..64133085 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold1988.1supercontigscaffold1988.1:137411..137625 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:5233839..5234067 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:5663288..5663502 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:5358441..5358667 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:6057482..6057696 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:5158517..5158745 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:5893418..5893632 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:5289683..5289909 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:6028345..6028559 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:5182519..5182747 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:6437026..6437240 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At05chromosomeAt05:3857067..3857281 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold91supercontigscaffold91:77615..77829 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3368supercontigscaffold3368:23714..23928 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:5247605..5247819 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:5676407..5676621 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:5353580..5353794 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:6175369..6175583 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:5202259..5202509 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:6044983..6045197 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:5521893..5522111 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:6056090..6056304 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:5241101..5241315 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:5942642..5942856 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:5324112..5324340 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:6187215..6187429 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:6363937..6364151 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:5864387..5864601 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:4864651..4864883 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:80259695..80259915 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:4978548..4978766 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:4682421..4682644 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:5031150..5031461 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:5168285..5168521 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:3910541..3910763 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:4592970..4593188 -Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:6330323..6330529 -Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:5058198..5058420 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr13chromosomeChr13:192056245..192056467 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr09chromosomeNAU2942:1..728 .
Chr09:4811378..4812105 -		n/a
scaffold450supercontigNAU2942:1..728 .
scaffold450:196011..196736 +		n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1(SM3 x SM12) x (X4133 x 8891), 4WC (2008)AD_ch19_Dt.05N/A82.1NAU2942View
2AD-genome wide Reference Map (2009)AD_ch19_Dt.05N/A33NAU2942View
3CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch19_Dt.05N/A185.8NAU2942View
4TM-1 x Hai-7124, BC1 (2007)AD_ch19_Dt.05N/A29.3NAU2942-250View
5TM-1 x Hai-7124, BC1 (2008)AD_ch19_Dt.05N/A28.89NAU2942-250View
6TM-1 x Hai-7124, BC1 (2012)AD_ch19_Dt.05N/A161.5NAU2942-250View
Sequence
>NAU2942 ID=NAU2942; Name=NAU2942; organism=Gossypium raimondii; type=genetic_marker; length=241bp
GGTAAAGAGGGAACCAACAAAATAGTACAACTCCAAACAGCTTGACAAGT
TCGCTCTGTAAAATTAGCTACGTACAGTCAACACTTTCCCTCTAATTACG
CTTCCTTTTTATGTAAAAATTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC
TCTCTNTCTCTCTCTCTATGTGCTTGTGTCTATATATATATAGATATGGA
GTGACCATGGTCTAACCAAATTCCTCGACTTCTCTTCTGCT