CSIRO_D5chr02_60921123 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr02_60921123
AliasChr02_60921123
dbSNP IDN/A
SNP Array ID
TAMU_CottonSNP63K:i02957Gh
TypeSNP
SNP AllelesC/T
5' Flanking SequenceTACCCAAAAATCTCTATCAAGTCATGGAAGCTCACCCGAACACAATGAGAGCCGAAGAGT TAGCAATCGAAGACTGTCCCATAACAGCATCAAAAGACAA
3' Flanking SequenceATATCAACCACATAATAACCAGATGTTCCACTTCCATCCCCGTATTGAAATGAGTAACTA CACTGATTACTCTGAGAGCACTGAGTTGCAGTTGTTTGAT
SpeciesGossypium hirsutum
GermplasmNamcala
Sicala 40
Sicot 81
Sicala V-2
Sicot 71
Sicala 3-2
Lu Mian 14
Deltapine 90
Coker 315
Tamcot SP37
Delta Opal
Sicot 70
Sicot 189
Siokra 1-4
Riverina Paplar
Deltapine 16
MCU-5 (PI 694627)
Source TypeRNA-seq
Publication[view all]
ContactZhu, Qian-Hao
Wilson, Iain
Stelly, David M.
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
Stelly, David M.
Description:Integrative structural genomics; Cytogenetics; Genetics; Cytogenomics; Radiation hybrid mapping; Chromosome manipulations. ; Wide-cross introgression.; QTL definition. ; Reproductive cytology, genetics and manipulations. ; Fiber cell initiation.
First name:David
Last name:Stelly
Title:Professor
Institution:Texas A&M University
Address:370 Olsen Blvd. , Dept. Soil & Crop Sci., TAMU, College Station, TX 77843-2474
Country:United States
Email:stelly@tamu.edu
Phone:+1 979 845 2745
Fax:+1 979 845 0456
Last update:19-Feb-2007
Libraries
Library NameType
TAMU_CottonSNP63KSNP_chip
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
Chr02chromosomeChr02:60921123..60921123 .Gossypium raimondii (D5) genome JGI_v2_a2.1n/a
CM018215.1chromosomeCM018215.1:60867800..60868000 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D10_01chromosomeD10_01:1786950..1787150 -Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr9chromosomeDt_chr9:51118479..51118679 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D01chromosomeD01:59544878..59545078 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D01chromosomeGhir_D01:61264466..61264666 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D01chromosomeD01:62745572..62745772 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D01chromosomeD01:62695647..62695847 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D01chromosomeD01:59468884..59469084 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D01chromosomeGbar_D01:61116674..61116874 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D01chromosomeD01:61757841..61758041 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017623.1chromosomeCM017623.1:62071389..62071589 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017649.1chromosomeCM017649.1:63540951..63541151 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017701.1chromosomeCM017701.1:61531658..61531858 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D01chromosomeD01:63164511..63164711 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr01chromosomeChr01:50574915..50575115 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr02chromosomeChr02:59479665..59479865 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr02chromosomechr02:45695883..45696083 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_02chromosomeChr_02:40443499..40443699 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr02chromosomeChr02:60351690..60351890 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr02chromosomeChr02:44126335..44126535 +Gossypium aridum (D4) genome ISU_v1n/a
Chr02chromosomeChr02:34773796..34773996 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr02chromosomeChr02:42605232..42605432 +Gossypium lobatum (D7) genome ISU_v1n/a
Germplasm
Stock NameType
Namcalaaccession
Sicala 40accession
Sicot 81accession
Sicala V-2accession
Sicot 71accession
Sicala 3-2accession
Lu Mian 14accession
Deltapine 90accession
Coker 315accession
Tamcot SP37accession
Delta Opalaccession
Sicot 70accession
Sicot 189accession
Siokra 1-4accession
Riverina Paplaraccession
Deltapine 16accession
MCU-5 (PI 694627)accession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Phytogen 72 x Stoneville 474, consbin (2017)AD_ch01_At.01N/A15.08SNPi02957GhView
23-79 x TM-1, F2 (2015 SNP)AD_ch01_At.01N/A15.41i02957GhView
3Phytogen 72 x Stoneville 474, F2 (2015 SNP)AD_ch01_At.01N/A10i02957GhView
Sequence
>CSIRO_D5chr02_60921123 ID=CSIRO_D5chr02_60921123; Name=CSIRO_D5chr02_60921123; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
TACCCAAAAATCTCTATCAAGTCATGGAAGCTCACCCGAACACAATGAGA
GCCGAAGAGTTAGCAATCGAAGACTGTCCCATAACAGCATCAAAAGACAA
[C/T]ATATCAACCACATAATAACCAGATGTTCCACTTCCATCCCCGTAT
TGAAATGAGTAACTACACTGATTACTCTGAGAGCACTGAGTTGCAGTTGT
TTGAT