CSIRO_D5chr02_13879289 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr02_13879289
AliasChr02_13879289
dbSNP IDN/A
TypeSNP
SNP AllelesC/G
5' Flanking SequenceCTTTAAAACCTTGTCCGGTTGAAACCAAAAACTGGTAGCAGGAGAAACTGGTGGTCATTA GTACCTTACTTTTCTCAAACGTTGTTGGTGTATTAAAGAA
3' Flanking SequenceTAAAAGGAAATTATGTGGTTCCAAAAATGCTTGGTCGCAAAGGTGTAAAATGTTTTCTTT GAATTCAAACTGGTTTCTTCCATTCTGTCCTTAGGATGAA
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
CM018215.1chromosomeCM018215.1:12493886..12494086 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_01chromosomeD5_01:12029550..12029749 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_01chromosomeD10_01:48393564..48393764 -Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr2chromosomeDt_chr2:45914623..45914823 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D01chromosomeD01:11665253..11665453 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D01chromosomeGhir_D01:12988386..12988586 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D01chromosomeD01:12712988..12713188 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D01chromosomeD01:12519402..12519602 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D01chromosomeD01:12879565..12879765 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D01chromosomeGbar_D01:13092876..13093076 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
CM017623.1chromosomeCM017623.1:12716767..12716967 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017649.1chromosomeCM017649.1:13608746..13608946 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017701.1chromosomeCM017701.1:12881679..12881879 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D01chromosomeD01:13198262..13198462 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr01chromosomeChr01:11910694..11910894 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr02chromosomeChr02:12866056..12866256 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr02chromosomechr02:11265028..11265228 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr02chromosomeChr02:8653755..8653955 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr02chromosomeChr02:11201374..11201574 +Gossypium lobatum (D7) genome ISU_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_ch01_At.01N/A11.96Chr02_13879289View
Sequence
>CSIRO_D5chr02_13879289 ID=CSIRO_D5chr02_13879289; Name=CSIRO_D5chr02_13879289; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
CTTTAAAACCTTGTCCGGTTGAAACCAAAAACTGGTAGCAGGAGAAACTG
GTGGTCATTAGTACCTTACTTTTCTCAAACGTTGTTGGTGTATTAAAGAA
[C/G]TAAAAGGAAATTATGTGGTTCCAAAAATGCTTGGTCGCAAAGGTG
TAAAATGTTTTCTTTGAATTCAAACTGGTTTCTTCCATTCTGTCCTTAGG
ATGAA