CSIRO_D5chr01_28225946 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr01_28225946
AliasChr01_28225946
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceTTTCACTATAATTTTAATTTTTTCTTATTTTGATTTTTATTGAATTCCAGTCTTCCAAAA ACTTTGTTTTACTTGTGTTTCAAAATTTTATATTCAAATT
3' Flanking SequenceTCTTACCCAAAAATTTAAATTTGAATTTTTACTGGTCTTTTTTTGACCAATTTTCACTTG AAAGAAAGGAAAGCAATATGAATGCAAGTAGGAAATAGAA
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
CM018221.1chromosomeCM018221.1:28293255..28293455 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:26520694..26520893 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_07chromosomeD10_07:26671409..26671608 -Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr1chromosomeDt_chr1:63663240..63663440 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr1chromosomeDt_chr1:63574412..63574612 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D07chromosomeD07:28079689..28079889 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:28688290..28688490 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:28056500..28056700 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:28729910..28730110 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:28224783..28224983 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D07chromosomeGbar_D07:28481213..28481413 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:28567299..28567499 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:28722220..28722420 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017707.1chromosomeCM017707.1:28810825..28811026 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:29056888..29057088 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
D07chromosomeD07:28871399..28871599 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:25773280..25773480 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr_01chromosomeChr_01:21754243..21754443 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:27835678..27835879 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:18348738..18348938 +Gossypium gossypioides (D6) genome ISU_v1n/a
Germplasm
Stock NameType
Siokra 1-4accession
MCU-5 (PI 694627)accession
Sequence
>CSIRO_D5chr01_28225946 ID=CSIRO_D5chr01_28225946; Name=CSIRO_D5chr01_28225946; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
TTTCACTATAATTTTAATTTTTTCTTATTTTGATTTTTATTGAATTCCAG
TCTTCCAAAAACTTTGTTTTACTTGTGTTTCAAAATTTTATATTCAAATT
[C/T]TCTTACCCAAAAATTTAAATTTGAATTTTTACTGGTCTTTTTTTG
ACCAATTTTCACTTGAAAGAAAGGAAAGCAATATGAATGCAAGTAGGAAA
TAGAA