CSIRO_D5chr01_48072708 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr01_48072708
AliasChr01_48072708
dbSNP IDN/A
TypeSNP
SNP AllelesA/T
5' Flanking SequenceTGATAATCAGCATATCCTGTAAGGCGGTGTCCAACAGCTGGAACTGTAGGTTCATTTGGA TGGATGTGATTGAAGCCAGATTCCTAACAATTATTTTTTA
3' Flanking SequenceAAAAAAATTGGAATTCCACCCAATATGGAAGTCAGCAAAATAAAACAAATAAAAGATTAT GTGAATCAACTAAATTAACAGAAATTGGTCTCAATGGTGG
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
CM018221.1chromosomeCM018221.1:52048224..52048424 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:47487823..47488023 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
scaffold4748.1supercontigscaffold4748.1:36184..36384 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D07chromosomeD07:51204038..51204238 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:55294491..55294691 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:54507890..54508090 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:54835515..54835715 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:51307444..51307644 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D07chromosomeGbar_D07:52478135..52478335 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:53140994..53141194 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:53001270..53001470 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:54029879..54030079 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:53115479..53115679 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:55405843..55406043 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:3987830..3988030 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Germplasm
Stock NameType
Siokra 1-4accession
MCU-5 (PI 694627)accession
Sequence
>CSIRO_D5chr01_48072708 ID=CSIRO_D5chr01_48072708; Name=CSIRO_D5chr01_48072708; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
TGATAATCAGCATATCCTGTAAGGCGGTGTCCAACAGCTGGAACTGTAGG
TTCATTTGGATGGATGTGATTGAAGCCAGATTCCTAACAATTATTTTTTA
[A/T]AAAAAAATTGGAATTCCACCCAATATGGAAGTCAGCAAAATAAAA
CAAATAAAAGATTATGTGAATCAACTAAATTAACAGAAATTGGTCTCAAT
GGTGG