UCD_Gh_M_000486, UCD_Gh_M_000486 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000486
AliasGh_M_000486
Tm1_Mira454_Contig_2137_1055
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceGCATGACACTGGCTTTCATTACATCTTTTTTGTGCACAGGGCCTAAGCCTATACCACTAA CAGGAATATTTACTTCCGGAGTTTTCAGAAATTCCAGCAG
3' Flanking SequenceGCTTCCAAAGAGCCAAGGGTAGAAGCTTGTACGTAAACCCCTTCCCCGCTTTTGTCAATC CTACTCATGACTGACTGCATATCTTCCTTTGCTGCCTCTT
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
CM018218.1chromosomeCM018218.1:53275889..53276089 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_04chromosomeD5_04:1001879..1002078 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_04chromosomeD10_04:51620047..51620247 -Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr12chromosomeDt_chr12:3038872..3039072 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D04chromosomeD04:50413562..50413762 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D04chromosomeGhir_D04:55194421..55194621 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D04chromosomeD04:55798877..55799077 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D04chromosomeD04:55032527..55032727 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D04chromosomeD04:53117072..53117272 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D04chromosomeGbar_D04:51373047..51373247 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D04chromosomeD04:56245731..56245931 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017626.1chromosomeCM017626.1:53352460..53352660 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017652.1chromosomeCM017652.1:56218720..56218920 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017704.1chromosomeCM017704.1:53371738..53371938 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D04chromosomeD04:56958261..56958461 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr04chromosomeChr04:1005210..1005410 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr12chromosomeChr12:53260075..53260275 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr12chromosomechr12:28937110..28937310 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_12chromosomeChr_12:23154981..23155181 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr12chromosomeChr12:53313619..53313819 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr12chromosomeChr12:21101960..21102160 -Gossypium gossypioides (D6) genome ISU_v1n/a
Germplasm
Stock NameType
Acala Maxxaaccession
PD-1accession
Sealand 542accession
Fibermax 832accession
TM-1accession
Sequence
>UCD_Gh_M_000486 ID=UCD_Gh_M_000486; Name=UCD_Gh_M_000486; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
GCATGACACTGGCTTTCATTACATCTTTTTTGTGCACAGGGCCTAAGCCT
ATACCACTAACAGGAATATTTACTTCCGGAGTTTTCAGAAATTCCAGCAG
[C/T]GCTTCCAAAGAGCCAAGGGTAGAAGCTTGTACGTAAACCCCTTCC
CCGCTTTTGTCAATCCTACTCATGACTGACTGCATATCTTCCTTTGCTGC
CTCTT