NAU4031, NAU4031 (genetic_marker) Gossypium raimondii

Marker Overview
NameNAU4031
Genbank IDCO129562
TypeSSR
SpeciesGossypium raimondii
Source TypeEST
Repeat Motif(ctg)8
PCR ConditionAnnealing temperature: 57
Primer 1NAU4031_F: TAATGCTAGGTTGCTGGACA
Primer 2NAU4031_R: TTTGATCAACAGCAACAACC
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:genbankCO129562
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:47891744..47891996 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A05chromosomeA05:54620934..54621216 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:47306514..47306766 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:62575520..62575772 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:43419219..43419465 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_05chromosomeKI_05:32455694..32455946 -Gossypioides kirkii genome ISU_v3n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:76832124..76832382 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:15339031..15339277 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016618.1chromosomeCM016618.1:26262390..26262642 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr9chromosomeDt_chr9:22332115..22332367 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr3chromosomeAt_chr3:1227843..1228113 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:46703556..46703808 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:49494578..49494860 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:47663084..47663336 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:67092220..67092502 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:48748324..48748576 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:68697859..68698141 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:49424786..49425038 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:67478073..67478343 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:48178655..48178907 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:66447776..66448058 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt05chromosomeDt05:49846080..49846332 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At05chromosomeAt05:48940461..48940713 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold9167supercontigscaffold9167:208286..208538 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold5512supercontigscaffold5512:215585..215837 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:44952632..44952884 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:63090834..63091086 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:49614858..49615110 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:65595924..65596176 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:48554746..48554998 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:64553917..64554169 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:49682896..49683154 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:68435857..68436100 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:48844565..48844817 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:64651290..64651542 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:50191861..50192113 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:69139509..69139791 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:69333667..69333919 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:44186309..44186555 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:27326279..27326531 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:44412253..44412499 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:36159770..36160025 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:35064104..35064350 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:47462595..47462841 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:32578111..32578363 +Gossypium aridum (D4) genome ISU_v1n/a
Chr09chromosomeChr09:28452671..28452914 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:33572978..33573221 +Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:79130123..79130363 +Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:56315087..56315348 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr05chromosomeChr05:33972321..33972567 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr09chromosomeNAU4031:1..834 .
Chr09:43771043..43771876 -		n/a
scaffold222supercontigNAU4031:1..834 .
scaffold222:160304..161137 -		n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1(SM3 x SM12) x (X4133 x 8891), 4WC (2008)AD_ch05_At.05N/A85.9NAU4031View
2AD-genome wide Reference Map (2009)AD_ch05_At.05N/A20NAU4031View
3(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch05_At.05N/A113.1NAU4031View
4Yumian-1 x 7235, RIL (2015)AD_ch05_At.05N/A94.6NAU4031View
5W10 x TM-1, F2:3 (2015)AD_ch05_At.05N/A34.8NAU4031View
60-153 x sGK9708, RIL (2016)AD_ch05_At.05N/A97.6NAU4031View
70-153 x sGK9708, RIL (2017)AD_ch05_At.05N/A62.45NAU4031View
8MGG-293-793, MAGIC (2018)AD_ch02_At.02N/A175.1NAU4031View
9MGG-293-793, MAGIC (2018)AD_ch05_At.05N/A175.1NAU4031View
10901-001 x sGK156, F2 (2019)AD_ch05_At.05N/A0NAU4031bView
11901-001 x sGK156, F2 (2019)AD_ch05_At.05N/A5.93NAU4031aView
Sequence
>NAU4031 ID=NAU4031; Name=NAU4031; organism=Gossypium raimondii; type=genetic_marker; length=247bp
TAATGCTAGGTTGCTGGACAGGCATGTTGTAAGCTTGAGGCTGCCTCGCG
GACACATAATACAGGGGATATTGCTGATCAATCTGTGTTTGATGATGGTG
ATGTTGCTGTTGGGAAGGATATACAGGATAATAAGCTGAGATCGGCACTG
CCCCAGACTGGTGATGATGAATGTAATGCGGTGCACCAGCAGCATGCAAG
AACTGCTGCTGCTGCTGCTGCTGCTGTGGTTGTTGCTGTTGATCAAA