CSIRO_D5chr02_60636467 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr02_60636467
AliasChr02_60636467
i02927Gh
dbSNP IDN/A
SNP Array ID
TAMU_CottonSNP63K:i02927Gh
TypeSNP
SNP AllelesA/G
5' Flanking SequenceAATGGAGGCTTTACAGAACTTGACTGGTAAACAATTAAAGGAAATTGTTAAACCAGATGA TTGGCAAGAAACTGAAGTTTCTAGGCTAATACAACTTAAA
3' Flanking SequenceCCACCATGGAAGGTTGTTCTGAAGAGATCCTATGGGAAGAAGTAGCTGCTAAAATGGCTT GTTTAGGCTTTGAAAAGAGTGCTTTAATGTGCAAAACAAA
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
VIR-6615
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
Germplasm
Stock NameType
Namcalacultivar
Sicala 40cultivar
Sicot 81cultivar
Sicala V-2cultivar
Sicot 71cultivar
Sicala 3-2cultivar
Lu Mian 14cultivar
Deltapine 90obsolete_cultivar
Coker 315cultivar
Tamcot SP37cultivar
Delta Opalcultivar
Sicot 70cultivar
Sicot 189cultivar
Siokra 1-4TBD
Riverina PaplarTBD
Deltapine 16obsolete_cultivar
VIR-6615breeding_germplasm
Relationships

The following marker_locus feature(s) are an instance of this genetic_marker:

Feature NameUnique NameSpeciesType
SNPi02927GhSNPi02927GhGossypium hirsutummarker_locus
i02927Ghi02927Gh-15.4Gossypium hirsutummarker_locus


Libraries
Library NameType
TAMU_CottonSNP63KSNP_chip
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
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
Chr02chromosomeChr02:60636467..60636467 .
CM018215.1chromosomeCM018215.1:60562351..60562551 +
CM018202.1chromosomeCM018202.1:110773857..110774057 +
D5_01chromosomeD5_01:54479570..54479770 +
Chr2chromosomeChr2:68226678..68226878 +
Chr02_CRI-A2_v1.0.a1chromosomeChr02_CRI-A2_v1.0.a1:97067216..97067416 +
scaffold294supercontigscaffold294:503731..503931 -
D10_01chromosomeD10_01:2116485..2116685 -
CM016614.1chromosomeCM016614.1:134674129..134674329 +
scaffold238.1supercontigscaffold238.1:1397856..1398056 +
Dt_chr9chromosomeDt_chr9:51408424..51408624 -
D01chromosomeD01:59229241..59229441 +
A01chromosomeA01:97568002..97568202 +
Ghir_D01chromosomeGhir_D01:60956929..60957129 +
Ghir_A01chromosomeGhir_A01:115240511..115240711 +
D01chromosomeD01:62455809..62456009 +
A01chromosomeA01:115736045..115736245 +
D01chromosomeD01:62388285..62388485 +
A01chromosomeA01:113539227..113539427 +
D01chromosomeD01:59161087..59161287 +
A01chromosomeA01:110337056..110337256 +
Gbar_D01chromosomeGbar_D01:60811348..60811548 +
Gbar_A01chromosomeGbar_A01:113253906..113254106 +
D01chromosomeD01:61454041..61454241 +
A01chromosomeA01:113236125..113236325 +
CM017623.1chromosomeCM017623.1:61706864..61707064 +
CM017610.1chromosomeCM017610.1:111769770..111769970 +
CM017649.1chromosomeCM017649.1:63232816..63233016 +
CM017636.1chromosomeCM017636.1:119281218..119281418 +
CM017701.1chromosomeCM017701.1:61215326..61215526 +
CM017688.1chromosomeCM017688.1:109419256..109419456 +
Sequence
>CSIRO_D5chr02_60636467 ID=CSIRO_D5chr02_60636467|Name=CSIRO_D5chr02_60636467|organism=Gossypium hirsutum|type=genetic_marker|length=205bp
AATGGAGGCTTTACAGAACTTGACTGGTAAACAATTAAAGGAAATTGTTA
AACCAGATGATTGGCAAGAAACTGAAGTTTCTAGGCTAATACAACTTAAA
[A/G]CCACCATGGAAGGTTGTTCTGAAGAGATCCTATGGGAAGAAGTAG
CTGCTAAAATGGCTTGTTTAGGCTTTGAAAAGAGTGCTTTAATGTGCAAA
ACAAA
Map Positions
#Map NameLinkage GroupBinChromosomePositionLocus
1Phytogen 72 x Stoneville 474, consbin (2017)PS-consbin_ch01N/AAD_chr.0118.21SNPi02927Gh
2Phytogen 72 x Stoneville 474, F2 (2015 SNP)PS-F2_c01N/AAD_chr.0115.4i02927Gh