CSIRO_D5chr02_23506195 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr02_23506195
AliasChr02_23506195
dbSNP IDN/A
TypeSNP
SNP AllelesA/T
5' Flanking SequenceAATAGTTGCCGTTAACTAATACTGTCGGTGAAGGTATACCGGCCAATATTTAGGGTTGGA ATTCAATTTCATTTAGTTTTTAATTTTAAGCCATTTGACC
3' Flanking SequenceATATTTGGTATTTCCAGATTTGGGTTTATGTCTTGTTTATAAGGAAAATATATATTATGC CCGTATGGATAAAAAAGAAAATTAGAAAATTGGAAATGGA
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
CM018215.1chromosomeCM018215.1:22804166..22804359 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_01chromosomeD5_01:21737446..21737645 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Dt_chr2chromosomeDt_chr2:35709465..35709665 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D01chromosomeD01:22046561..22046761 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D01chromosomeGhir_D01:23391122..23391322 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D01chromosomeD01:22823593..22823793 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D01chromosomeD01:22961064..22961264 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D01chromosomeD01:23301979..23302179 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D01chromosomeGbar_D01:23409563..23409756 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D01chromosomeD01:23111759..23111952 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017623.1chromosomeCM017623.1:23178417..23178617 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017649.1chromosomeCM017649.1:24259476..24259676 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017701.1chromosomeCM017701.1:23112446..23112646 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D01chromosomeD01:23698431..23698631 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr02chromosomeChr02:22768762..22768962 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Germplasm
Stock NameType
Siokra 1-4accession
MCU-5 (PI 694627)accession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1MCU-5 x Siokra 1-4, RIL (2015 SNP)AD_ch15_Dt.01N/A54.54Chr02_23506195View
Sequence
>CSIRO_D5chr02_23506195 ID=CSIRO_D5chr02_23506195; Name=CSIRO_D5chr02_23506195; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
AATAGTTGCCGTTAACTAATACTGTCGGTGAAGGTATACCGGCCAATATT
TAGGGTTGGAATTCAATTTCATTTAGTTTTTAATTTTAAGCCATTTGACC
[A/T]ATATTTGGTATTTCCAGATTTGGGTTTATGTCTTGTTTATAAGGA
AAATATATATTATGCCCGTATGGATAAAAAAGAAAATTAGAAAATTGGAA
ATGGA