CSIRO_D5chr04_31335778 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr04_31335778
AliasChr04_31335778
dbSNP IDN/A
TypeSNP
SNP AllelesA/C
5' Flanking SequenceAATAAACAAAATATGCACTGATTTTGAATTCTTTTGTGAACTTAAAATAATTTTATTATT GAATAAATTTTATTATAAAAAACTAATTACTAGTAATTTT
3' Flanking SequenceAAAAATTATAACTAATTAACTATATCAACAATTCTAATCAAAATATAATATGTAAGCTAA AGTGCCCATAAAACCTTGAATACCTATAAAATTTTGAGCG
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
CM018222.1chromosomeCM018222.1:31574908..31575108 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_08chromosomeD5_08:30873798..30873998 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Dt_chr4chromosomeDt_chr4:16828820..16829019 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D08chromosomeD08:33553662..33553861 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D08chromosomeGhir_D08:36495668..36495867 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D08chromosomeD08:37597058..37597257 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D08chromosomeD08:36229523..36229722 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D08chromosomeD08:34243483..34243682 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D08chromosomeGbar_D08:33344879..33345079 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D08chromosomeD08:36074683..36074883 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017630.1chromosomeCM017630.1:34363282..34363481 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017656.1chromosomeCM017656.1:33327916..33328116 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017708.1chromosomeCM017708.1:31629598..31629798 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D08chromosomeD08:33318065..33318264 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr08chromosomeChr08:31503583..31503783 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr04chromosomeChr04:32367127..32367327 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr04chromosomeChr04:34405951..34406151 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Germplasm
Stock NameType
Siokra 1-4accession
MCU-5 (PI 694627)accession
Sequence
>CSIRO_D5chr04_31335778 ID=CSIRO_D5chr04_31335778; Name=CSIRO_D5chr04_31335778; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
AATAAACAAAATATGCACTGATTTTGAATTCTTTTGTGAACTTAAAATAA
TTTTATTATTGAATAAATTTTATTATAAAAAACTAATTACTAGTAATTTT
[A/C]AAAAATTATAACTAATTAACTATATCAACAATTCTAATCAAAATA
TAATATGTAAGCTAAAGTGCCCATAAAACCTTGAATACCTATAAAATTTT
GAGCG