NAU3620, NAU3620 (genetic_marker) Gossypium raimondii

Marker Overview
NameNAU3620
Genbank IDCO114046
TypeSSR
SpeciesGossypium raimondii
Source TypeEST
Repeat Motif(ctt)11
PCR ConditionAnnealing temperature: 57
Primer 1NAU3620_F: ACTCGAAATCATTCCCTTCA
Primer 2NAU3620_R: CATCACCTTACGGTGTCAAG
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:genbankCO114046
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:23453233..23453475 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A05chromosomeA05:25776897..25777151 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:22170456..22170713 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:24744002..24744253 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:20907767..20908010 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_05chromosomeKI_05:18742510..18742770 +Gossypioides kirkii genome ISU_v3n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:25149014..25149262 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:39559671..39559918 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016618.1chromosomeCM016618.1:86107491..86107736 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr11chromosomeDt_chr11:5725907..5726149 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:22496291..22496533 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:22777192..22777449 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:22763092..22763334 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:25367218..25367474 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:22191801..22192043 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:24606267..24606524 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:22602992..22603234 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:25413442..25413699 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:22485255..22485497 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:25476159..25476416 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold7400supercontigscaffold7400:91647..91898 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:22695768..22696025 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:24474792..24475043 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:22501255..22501512 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:25089416..25089667 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:22365072..22365311 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:25032882..25033115 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:22793545..22793778 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:25317942..25318196 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:22492688..22492933 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:24678352..24678603 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:23103185..23103424 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:25836374..25836631 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:26562726..26562974 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:25396034..25396282 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:20998323..20998565 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:60997749..60998000 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:21460629..21460874 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:19148602..19148850 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:17703431..17703682 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:22148301..22148543 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:18013847..18014098 +Gossypium aridum (D4) genome ISU_v1n/a
Chr09chromosomeChr09:15770112..15770357 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:18455659..18456073 +Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:27583314..27583571 +Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:21907008..21907271 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr09chromosomeNAU3620:1..855 .
Chr09:20830662..20831516 -		n/a
Chr9chromosomeNAU3620:1..855 .
Chr9:29267937..29268791 +		n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch05_At.05N/A146.57NAU3620View
2AD-genome wide Reference Map (2009)AD_ch05_At.05N/A99NAU3620View
3CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch19_Dt.05N/A116.8NAU3620View
4TM-1 x Hai-7124, BC1 (2007)AD_ch05_At.05N/A109.7NAU3620-245View
5TM-1 x Hai-7124, BC1 (2008)AD_ch05_At.05N/A96.46NAU3620-245View
6TM-1 x Hai-7124, BC1 (2012)AD_ch05_At.05N/A107.4NAU3620-245View
Sequence
>NAU3620 ID=NAU3620; Name=NAU3620; organism=Gossypium raimondii; type=genetic_marker; length=243bp
ACTCGAAATCATTCCCTTCATATTCATCTTCAGTATCCCCATCTTCTTCT
TCTTCTTCTTCTTCTTCTTCTTCTTGGGTGTGATTGTTGTTGTGACCCAC
ATTGCCTTTGTCAGCTTCTTCTTCCATCATCGCCACCGTCTCGGCCTGGT
GGTTGTTTCCTTGCGGTGGAGGCCATTGTTGTTCGGGCCTTACCATTAGT
GGCACCGTGGACCTGCTGTCGGGCTTGACACCGTAAGGTGATG