CSIRO_D5chr06_45501549 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr06_45501549
AliasChr06_45501549
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceAGATTAAAAGATTTAGTTCAATTTACCATAAGAGGAAACTTTGAGAAATTGAGTTAAATG ACATCTAATATTAAGTGTTGAATTAGGAATTCTTGTAATA
3' Flanking SequenceATGTTAGATTTGAAGTGGATACAATAAATTCAAGCTTCAAGTAAGTTTTTGATTTTATGA TTAATTAATTATTATTAAGGACCTAAATGTAAAGGATAAG
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
CM018223.1chromosomeCM018223.1:44713806..44714006 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_09chromosomeD5_09:38166833..38167033 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_09chromosomeD10_09:5567454..5567654 -Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr6chromosomeDt_chr6:5187025..5187225 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D09chromosomeD09:44852839..44853039 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D09chromosomeGhir_D09:46830907..46831107 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D09chromosomeD09:46248591..46248791 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D09chromosomeD09:46566417..46566617 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D09chromosomeD09:44669588..44669788 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D09chromosomeGbar_D09:45416855..45417055 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D09chromosomeD09:47915720..47915920 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017631.1chromosomeCM017631.1:45647646..45647846 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017657.1chromosomeCM017657.1:47093838..47094038 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
D09chromosomeD09:48305504..48305704 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr09chromosomeChr09:44389426..44389625 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr06chromosomeChr06:44949468..44949668 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr06chromosomechr06:37184970..37185170 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr06chromosomeChr06:46209330..46209530 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr06chromosomeChr06:31916773..31916973 +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_ch09_At.09N/A43.3Chr06_45501549View
Sequence
>CSIRO_D5chr06_45501549 ID=CSIRO_D5chr06_45501549; Name=CSIRO_D5chr06_45501549; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
AGATTAAAAGATTTAGTTCAATTTACCATAAGAGGAAACTTTGAGAAATT
GAGTTAAATGACATCTAATATTAAGTGTTGAATTAGGAATTCTTGTAATA
[C/T]ATGTTAGATTTGAAGTGGATACAATAAATTCAAGCTTCAAGTAAG
TTTTTGATTTTATGATTAATTAATTATTATTAAGGACCTAAATGTAAAGG
ATAAG