UCD_Gh_M_000613, UCD_Gh_M_000613 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000613
AliasGh_M_000613
Tm1_Mira454_Contig_2771_1235
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceGATCTTCGGTTCTGCATGCTTCAGCAATGGCCCCATTGGCAGCCATGTATCCAAACTTCA AGTACGGGCAAATTTCATAAAGGGTATGCATGTATGTGAG
3' Flanking SequenceAAGTCCTTGCCTTCCGGCTCTTGGCAACGAAGGGCTCGATATATGTTAGATCCCGATGCC TCCTTCCTTGCTACCAACCCTTCCACCATGTAAGCACCAA
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
CM018205.1chromosomeCM018205.1:3752730..3752930 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:92915448..92915648 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
scaffold2595.1supercontigscaffold2595.1:164894..165094 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A04chromosomeA04:3725836..3726036 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A04chromosomeGhir_A04:4247629..4247829 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A04chromosomeA04:3544033..3544233 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A04chromosomeA04:3679250..3679450 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A04chromosomeA04:3407289..3407489 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_A04chromosomeGbar_A04:3989035..3989235 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A04chromosomeA04:3784773..3784973 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017613.1chromosomeCM017613.1:3523549..3523749 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017639.1chromosomeCM017639.1:4359392..4359592 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017691.1chromosomeCM017691.1:3837641..3837841 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A04chromosomeA04:3689943..3690143 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:89987063..89987263 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:93615950..93616150 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
F05chromosomeF05:72652556..72652755 +Gossypium longicalyx (F1) genome NSF_v1n/a
Germplasm
Stock NameType
Acala Maxxaaccession
PD-1accession
Sealand 542accession
Fibermax 832accession
TM-1accession
Sequence
>UCD_Gh_M_000613 ID=UCD_Gh_M_000613; Name=UCD_Gh_M_000613; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
GATCTTCGGTTCTGCATGCTTCAGCAATGGCCCCATTGGCAGCCATGTAT
CCAAACTTCAAGTACGGGCAAATTTCATAAAGGGTATGCATGTATGTGAG
[C/T]AAGTCCTTGCCTTCCGGCTCTTGGCAACGAAGGGCTCGATATATG
TTAGATCCCGATGCCTCCTTCCTTGCTACCAACCCTTCCACCATGTAAGC
ACCAA