CSIRO_D5chr03_39846724 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr03_39846724
AliasChr03_39846724
dbSNP IDN/A
TypeSNP
SNP AllelesG/C
5' Flanking SequenceTTGGTTCTTGACAAAAAAATCCATTCAACACCGTTTATATATTAATAAAACATACTTTAT ATTAGTATTTAGATGTTATTATTTAAATCGAATTCAAAGG
3' Flanking SequenceGAGCCAGAAATGTGAAATGATGGTGACTTTTGAGATCATTTTATGAAAAAAGAAAAAGAA AAAAGAAAGGGAGAGTAAAGTCTTAACAAGTGGAATATAT
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
CM018217.1chromosomeCM018217.1:46519407..46519607 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_02chromosomeD5_02:40356972..40357171 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Dt_chr3chromosomeDt_chr3:21451551..21451751 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D03chromosomeD03:40353564..40353764 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D03chromosomeGhir_D03:46023579..46023778 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D03chromosomeD03:47500639..47500839 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D03chromosomeD03:47020835..47021035 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D03chromosomeD03:46329362..46329562 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D03chromosomeGbar_D03:44928193..44928393 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D03chromosomeD03:47398895..47399095 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017625.1chromosomeCM017625.1:45766295..45766495 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017651.1chromosomeCM017651.1:49869902..49870102 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
D03chromosomeD03:48282892..48283092 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr02chromosomeChr02:42452111..42452311 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr03chromosomeChr03:45841455..45841656 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr03chromosomeChr03:25293391..25293592 +Gossypium aridum (D4) genome ISU_v1n/a
Chr03chromosomeChr03:27273478..27273678 +Gossypium lobatum (D7) genome ISU_v1n/a
Germplasm
Stock NameType
Siokra 1-4accession
MCU-5 (PI 694627)accession
Sequence
>CSIRO_D5chr03_39846724 ID=CSIRO_D5chr03_39846724; Name=CSIRO_D5chr03_39846724; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
TTGGTTCTTGACAAAAAAATCCATTCAACACCGTTTATATATTAATAAAA
CATACTTTATATTAGTATTTAGATGTTATTATTTAAATCGAATTCAAAGG
[G/C]GAGCCAGAAATGTGAAATGATGGTGACTTTTGAGATCATTTTATG
AAAAAAGAAAAAGAAAAAAGAAAGGGAGAGTAAAGTCTTAACAAGTGGAA
TATAT