CSIRO_D5chr01_44009699 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr01_44009699
AliasChr01_44009699
dbSNP IDN/A
TypeSNP
SNP AllelesA/G
5' Flanking SequenceATGGTAAGTAGTTGAGGTGAGTATATGAAATTTTGATATTTAATTGAATTGAATTCATTA TATATGTGATTTTATGGAAAATTGATATTTGATATTGATT
3' Flanking SequenceTTATTGAATTGTGAAATTGAAACCTTATTAAATGTATTAGGTTGAGTCGAATATAGATGG CATGCCATAGGATTGGAAGAGTTTAGGGATTTCTTCGACT
SpeciesGossypium hirsutum
GermplasmSiokra 1-4
MCU-5 (PI 694627)
Source Typerestriction-site associated DNA
RNA-seq and restriction-site associated DNA
Restriction EnzymeEcoRI; ApekI; SbfI
Publication[view all]
ContactZhu, Qian-Hao
Wilson, Iain
CommentData obtained 2014. SNP location is based on D5 JGI 221 position
Contact
NameDetails
Zhu, Qian-Hao
First name:Qian-Hao
Last name:Zhu
Title:Research Scientist
Institution:CSIRO
Address:CSIRO Plant Industry, GPO Box 1600, Canberra, ACT 2601,
Country:Australia
Email:Qianhao.Zhu@csiro.au
Phone:61 2 62464903
Last update:24-Aug-2014
Wilson, Iain
Description:SNPs; Disease resistance
First name:Iain
Last name:Wilson
Title:Senior Scientist
Institution:CSIRO
Address:Black Mountain Laboratories Clunies Ross Street, Black Mountain, ACT 2601
Country:Australia
Email:iain.wilson@csiro.au
Phone:+61 (0)2 62465211
Last update:28-Feb-2010
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
CM018221.1chromosomeCM018221.1:47996417..47996617 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:44233898..44234098 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Dt_chr1chromosomeDt_chr1:83118705..83118905 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D07chromosomeD07:46966377..46966577 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:51170057..51170257 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:50447625..50447825 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:50625574..50625774 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:47105519..47105719 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D07chromosomeGbar_D07:48264545..48264745 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:49102824..49103024 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:48786834..48787034 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:49785281..49785481 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
D07chromosomeD07:51166007..51166207 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:8070255..8070455 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr01chromosomeChr01:47448698..47448898 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Germplasm
Stock NameType
Siokra 1-4accession
MCU-5 (PI 694627)accession
Sequence
>CSIRO_D5chr01_44009699 ID=CSIRO_D5chr01_44009699; Name=CSIRO_D5chr01_44009699; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
ATGGTAAGTAGTTGAGGTGAGTATATGAAATTTTGATATTTAATTGAATT
GAATTCATTATATATGTGATTTTATGGAAAATTGATATTTGATATTGATT
[A/G]TTATTGAATTGTGAAATTGAAACCTTATTAAATGTATTAGGTTGA
GTCGAATATAGATGGCATGCCATAGGATTGGAAGAGTTTAGGGATTTCTT
CGACT