CSIRO_D5chr11_27082456 (genetic_marker) Gossypium hirsutum

Marker Overview

Name

CSIRO_D5chr11_27082456

Alias

Chr11_27082456

dbSNP ID

N/A

SNP Array ID

TAMU_CottonSNP63K:

i20067Gh

Type

SNP

SNP Alleles

A/G

5' Flanking Sequence

AATGACATCAGATGTGGCCTGACCTGATTGCAAAGAGCAAGGAGGGTGGAGCAGATGTTA TTGAAAGTTATACATTTTGGAATGGGCATGAACCAGTCAG

3' Flanking Sequence

GGGCAGGTATGCTATTACTCTTTTGTGTCTAATCTATGGTAGATTGGTACTTACTGGGAA TTCGTACTAGTTTTGACTCTTTTGGTTTTGGTTAGAATAT

Species

Gossypium hirsutum

Germplasm

Siokra 1-4
MCU-5 (PI 694627)

Source Type

restriction-site associated DNA
RNA-seq and restriction-site associated DNA

Restriction Enzyme

EcoRI; ApekI; SbfI

Publication

[view all]

Contact

Zhu, Qian-Hao
Wilson, Iain
Stelly, David M.

Comment

Data obtained 2014. SNP location is based on D5 JGI 221 position

Contact

Name

Details

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 Name	Type
TAMU_CottonSNP63K	SNP_chip

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
Chr11	chromosome	Chr11:27082456..27082456 .
D5_10	chromosome	D5_10:34975469..34975669 -
Chr10	chromosome	Chr10:27215338..27215538 +
chr11	chromosome	chr11:23882986..23883180 +

Publications


Year	Publication
2014	Zhu QH, Spriggs A, Taylor JM, Llewellyn D, Wilson I. Transcriptome and Complexity-Reduced-DNA Based Identification of Intraspecies Single Nucleotide Polymorphisms in the Polyploid Gossypium hirsutum L. G3 (Bethesda, Md.). 2014 Aug 7.
2015	Hulse-Kemp AM, Lemm J, Plieske J, Ashrafi H, Buyyarapu R, Fang DD, Frelichowski J, Giband M, Hague S, Hinze LL, Kochan KJ, Riggs PK, Scheffler JA, Udall JA, Ulloa M, Wang SS, Zhu QH, Bag SK, Bhardwaj A, Burke JJ, Byers RL, Claverie M, Gore MA, Harker DB, Islam MS, Jenkins JN, Jones DC, Lacape JM, Llewellyn DJ, Percy RG, Pepper AE, Poland JA, Mohan Rai K, Sawant SV, Kumar Singh S, Spriggs A, Taylor JM, Wang F, Yourstone SM, Zheng X, Lawley CT, Ganal MW, Van Deynze A, Wilson IW, Stelly DM. Development of a 63K SNP Array for Cotton and High-Density Mapping of Intra- and Inter-Specific Populations of Gossypium spp. G3 (Bethesda, Md.). 2015 Apr 22.

Germplasm


Stock Name	Type
Siokra 1-4	accession
MCU-5 (PI 694627)	accession

Map Positions


#	Map Name	Linkage Group	Bin	Position	Locus	MapViewer
1	MCU-5 x Siokra 1-4, RIL (2015 SNP)	AD_ch10_At.10	N/A	76.61	Chr11_27082456	View
2	3-79 x TM-1, F2 (2015 SNP)	AD_ch10_At.10	N/A	81.69	i20067Gh	View

Sequence

>CSIRO_D5chr11_27082456 ID=CSIRO_D5chr11_27082456; Name=CSIRO_D5chr11_27082456; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
AATGACATCAGATGTGGCCTGACCTGATTGCAAAGAGCAAGGAGGGTGGA
GCAGATGTTATTGAAAGTTATACATTTTGGAATGGGCATGAACCAGTCAG
[A/G]GGGCAGGTATGCTATTACTCTTTTGTGTCTAATCTATGGTAGATT
GGTACTTACTGGGAATTCGTACTAGTTTTGACTCTTTTGGTTTTGGTTAG
AATAT

Search form

CSIRO_D5chr11_27082456 (genetic_marker) Gossypium hirsutum