CSIRO_D5chr04_26967635 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr04_26967635
AliasChr04_26967635
dbSNP IDN/A
TypeSNP
SNP AllelesT/A
5' Flanking SequenceTTAAATCCAAAGTCAACATCAACAATCAATTTTCACATCCTATTCTAATTTTTGAGGTTT TAAAAGTCATTTTAGTCCATTCCAAAGTCCCATTACGAAA
3' Flanking SequenceGAGAATGTTCAGACATCATTCAGAGCCCTTCTAATAAATGATTAAGCGGAAGAAGCGCAT CAAGATCGAATTCAAATTGTTTGACTCGAAAAAGAAAGAT
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
CM018222.1chromosomeCM018222.1:29391270..29391470 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_08chromosomeD5_08:26570443..26570642 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Dt_chr4chromosomeDt_chr4:446717..446917 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold6000supercontigscaffold6000:7531..7731 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D08chromosomeGhir_D08:31080488..31080689 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D08chromosomeD08:31511870..31512070 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D08chromosomeD08:30772195..30772395 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D08chromosomeD08:29113518..29113718 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D08chromosomeGbar_D08:29275771..29275971 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D08chromosomeD08:30317387..30317587 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017630.1chromosomeCM017630.1:30148042..30148242 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017656.1chromosomeCM017656.1:31324176..31324376 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017708.1chromosomeCM017708.1:29452976..29453176 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D08chromosomeD08:31040311..31040511 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr08chromosomeChr08:27185846..27186046 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr04chromosomeChr04:27801443..27801643 +Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr04chromosomeChr04:29637128..29637328 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr04chromosomeChr04:18556436..18556636 +Gossypium aridum (D4) genome ISU_v1n/a
Chr04chromosomeChr04:18477262..18477462 +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_ch08_At.08N/A232.16Chr04_26967635View
Sequence
>CSIRO_D5chr04_26967635 ID=CSIRO_D5chr04_26967635; Name=CSIRO_D5chr04_26967635; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
TTAAATCCAAAGTCAACATCAACAATCAATTTTCACATCCTATTCTAATT
TTTGAGGTTTTAAAAGTCATTTTAGTCCATTCCAAAGTCCCATTACGAAA
[T/A]GAGAATGTTCAGACATCATTCAGAGCCCTTCTAATAAATGATTAA
GCGGAAGAAGCGCATCAAGATCGAATTCAAATTGTTTGACTCGAAAAAGA
AAGAT