CSIRO_D5chr02_41476596 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr02_41476596
AliasChr02_41476596
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceACAAATTACATTTGGAAAGTTCAATGAGTGCTAAAAGCAGTTTGAATAATATTCACCATA AATGTCCCCTTTTTTTTCTCAAACATTTTAAATGATGATT
3' Flanking SequenceAATTTCATTTCATAAGAATTCAAGAAATAAAATTCCCAAAGAAAACATGAACATCTCAGC TTATCCTGACTTCTAATGACCATGTTGAGACATTAACCTA
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
CM018215.1chromosomeCM018215.1:42370607..42370807 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_01chromosomeD5_01:35594574..35594774 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_01chromosomeD10_01:20127676..20127875 +Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr2chromosomeDt_chr2:21131334..21131534 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D01chromosomeD01:40399105..40399305 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D01chromosomeGhir_D01:42176762..42176962 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D01chromosomeD01:44132156..44132356 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D01chromosomeD01:43561571..43561771 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D01chromosomeD01:41074443..41074643 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D01chromosomeGbar_D01:42572268..42572468 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D01chromosomeD01:43368213..43368413 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017623.1chromosomeCM017623.1:43319943..43320143 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017649.1chromosomeCM017649.1:44372687..44372887 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017701.1chromosomeCM017701.1:42780780..42780980 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D01chromosomeD01:44003735..44003935 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr01chromosomeChr01:31162411..31162611 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr02chromosomeChr02:41279345..41279545 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr02chromosomechr02:30351873..30352073 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_02chromosomeChr_02:27468864..27469064 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr02chromosomeChr02:30193789..30193989 +Gossypium aridum (D4) genome ISU_v1n/a
Chr02chromosomeChr02:28847912..28848113 +Gossypium lobatum (D7) genome ISU_v1n/a
Germplasm
Stock NameType
Siokra 1-4accession
MCU-5 (PI 694627)accession
Sequence
>CSIRO_D5chr02_41476596 ID=CSIRO_D5chr02_41476596; Name=CSIRO_D5chr02_41476596; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
ACAAATTACATTTGGAAAGTTCAATGAGTGCTAAAAGCAGTTTGAATAAT
ATTCACCATAAATGTCCCCTTTTTTTTCTCAAACATTTTAAATGATGATT
[C/T]AATTTCATTTCATAAGAATTCAAGAAATAAAATTCCCAAAGAAAA
CATGAACATCTCAGCTTATCCTGACTTCTAATGACCATGTTGAGACATTA
ACCTA