UCD_Gh_M_000517, UCD_Gh_M_000517 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000517
AliasGh_M_000517
Tm1_Mira454_Contig_2246_232
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceAGGATTTAAAAGCATTATAGCAATTTAAAACATTGAAAATAAATATAATAGCATAAGAGA GGCATCTTCTCATTGTAGCGGCAGTCACAGGATGGCACAC
3' Flanking SequenceGAGCAGCTTGCTTGCGGAGCTCCTCTGTCTCTTTCTGTGCTCTTTCTAGATTCTCTCGAA GCTTCCGGATTTCATCATTTGATTTCATTTGAGCTAACTG
SpeciesGossypium hirsutum
GermplasmAcala Maxxa
PD-1
Sealand 542
Fibermax 832
TM-1
Source TypeRNA
Publication[view all]
ContactAshrafi, Hamid
Contact
NameDetails
Ashrafi, Hamid
First name:Hamid
Last name:Ashrafi
Title:Bioinformatics Specialist
Institution:University of California
Address:1 Shields Ave, Davis, CA 95616
Country:United States
Email:ashrafi@ucdavis.edu
Last update:24-Aug-2014
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
CM018227.1chromosomeCM018227.1:37588159..37588359 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_13chromosomeD5_13:36844968..36845167 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Dt_chr13chromosomeDt_chr13:28518812..28519012 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D13chromosomeD13:37121306..37121506 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D13chromosomeGhir_D13:40650676..40650876 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D13chromosomeD13:42001628..42001828 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D13chromosomeD13:40789175..40789375 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D13chromosomeD13:37718740..37718940 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D13chromosomeGbar_D13:37338585..37338785 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D13chromosomeD13:38857668..38857868 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017635.1chromosomeCM017635.1:38851209..38851409 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017661.1chromosomeCM017661.1:41482645..41482845 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017713.1chromosomeCM017713.1:38667426..38667626 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D13chromosomeD13:41752988..41753188 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr13chromosomeChr13:37100784..37100984 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
chr13_6504797chromosomechr13_6504797:2161..2361 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr13chromosomeChr13:40141473..40141673 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr13chromosomeChr13:19982407..19982607 -Gossypium gossypioides (D6) genome ISU_v1n/a
E13chromosomeE13:80426356..80426556 -Gossypium stocksii (E1) genome NSF_v1n/a
Germplasm
Stock NameType
Acala Maxxaaccession
PD-1accession
Sealand 542accession
Fibermax 832accession
TM-1accession
Sequence
>UCD_Gh_M_000517 ID=UCD_Gh_M_000517; Name=UCD_Gh_M_000517; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
AGGATTTAAAAGCATTATAGCAATTTAAAACATTGAAAATAAATATAATA
GCATAAGAGAGGCATCTTCTCATTGTAGCGGCAGTCACAGGATGGCACAC
[C/T]GAGCAGCTTGCTTGCGGAGCTCCTCTGTCTCTTTCTGTGCTCTTT
CTAGATTCTCTCGAAGCTTCCGGATTTCATCATTTGATTTCATTTGAGCT
AACTG