CSIRO_D5chr01_10277722 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr01_10277722
AliasChr01_10277722
dbSNP IDN/A
SNP Array ID
TAMU_CottonSNP63K:i01605Gh
TypeSNP
SNP AllelesC/A
5' Flanking SequenceGATCGTTGCAAAGAAAACCGAATCATTTCTCTGAGAAACTTCATTCAAATATGCCTGTCT CCTGATATTTCTCTTCTGTGAGATGGTTAAAAACTTTGGA
3' Flanking SequenceTAACCTTCTTCAAGTTTTTGCCCAATGGAATAGTAAAGTCATCGTCTCTATCACCGACTA ACCGCACGAGCTGCTCACGAATCGTGAGTTTCCCAGACCT
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
Chr01chromosomeChr01:10277722..10277722 .Gossypium raimondii (D5) genome JGI_v2_a2.1n/a
CM018221.1chromosomeCM018221.1:10273229..10273429 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:10375633..10375833 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_07chromosomeKI_07:30553172..30553372 -Gossypioides kirkii genome ISU_v3n/a
D10_07chromosomeD10_07:43664366..43664566 -Gossypium turneri (D10) genome NSF_v1_a2n/a
D07chromosomeD07:10300300..10300500 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:10761814..10762014 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:10301614..10301814 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:10713202..10713402 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:10619878..10620078 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D07chromosomeGbar_D07:10677979..10678179 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:10416537..10416737 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:10793436..10793636 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:10899974..10900174 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:10622977..10623177 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:10926217..10926417 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:43208110..43208310 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_07chromosomeB_07:13143288..13143488 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr01chromosomeChr01:10682009..10682209 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr01chromosomechr01:9331049..9331249 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_01chromosomeChr_01:9300954..9301154 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:10563498..10563698 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:8616531..8616731 +Gossypium aridum (D4) genome ISU_v1n/a
Chr01chromosomeChr01:7100516..7100716 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr01chromosomeChr01:8633945..8634145 +Gossypium lobatum (D7) genome ISU_v1n/a
E07chromosomeE07:77992750..77992950 -Gossypium stocksii (E1) genome NSF_v1n/a
F07chromosomeF07:12160428..12160628 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr07chromosomeChr07:21638251..21638451 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_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
Sequence
>CSIRO_D5chr01_10277722 ID=CSIRO_D5chr01_10277722; Name=CSIRO_D5chr01_10277722; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
GATCGTTGCAAAGAAAACCGAATCATTTCTCTGAGAAACTTCATTCAAAT
ATGCCTGTCTCCTGATATTTCTCTTCTGTGAGATGGTTAAAAACTTTGGA
[C/A]TAACCTTCTTCAAGTTTTTGCCCAATGGAATAGTAAAGTCATCGT
CTCTATCACCGACTAACCGCACGAGCTGCTCACGAATCGTGAGTTTCCCA
GACCT