UCD_Gh_M_000010, UCD_Gh_M_000010 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000010
AliasGh_M_000010
Tm1_Mira454_Contig_1300_1243
dbSNP IDN/A
TypeSNP
SNP AllelesG/A
5' Flanking SequenceCTTGGGTCATCTTCAACGAGGGGAATGAGTCCTAGACTGAGGAATGGTTTGGATGATAAT TTGGTAACTAGGCTGTCGATTTTGAGCTTTGTTGGTGATG
3' Flanking SequenceTTTTAAGATTGGGGAGAACAAAGTTTCGGATGCTAATTTGTTGAGGCTACTTCATAACCG GTGGTTGCAGTGGCGTTTTGTTAATGCTAGAGCAGATGCT
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
CM018203.1chromosomeCM018203.1:20174800..20175000 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr03_CRI-A2_v1.0.a1chromosomeChr03_CRI-A2_v1.0.a1:22509439..22509639 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
CM016616.1chromosomeCM016616.1:122990287..122990487 +Gossypium australe (G2) genome CRI_v1.1n/a
At_chr3chromosomeAt_chr3:34050175..34050375 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A02chromosomeA02:20645495..20645695 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A02chromosomeGhir_A02:21467559..21467759 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A02chromosomeA02:20051808..20052008 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A02chromosomeA02:20880137..20880337 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A02chromosomeA02:20628272..20628472 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_A02chromosomeGbar_A02:20247596..20247796 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A02chromosomeA02:20178134..20178334 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017611.1chromosomeCM017611.1:20661112..20661312 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017637.1chromosomeCM017637.1:21328085..21328285 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017689.1chromosomeCM017689.1:20598217..20598417 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A02chromosomeA02:21037310..21037510 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr03chromosomeChr03:109901124..109901324 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr03chromosomeChr03:108373518..108373718 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
B_03chromosomeB_03:85286575..85286775 +Gossypium anomalum (B1) genome NSF_v1n/a
F03chromosomeF03:20606914..20607114 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr03chromosomeChr03:167657374..167657574 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Germplasm
Stock NameType
Acala Maxxaaccession
PD-1accession
Sealand 542accession
Fibermax 832accession
TM-1accession
Sequence
>UCD_Gh_M_000010 ID=UCD_Gh_M_000010; Name=UCD_Gh_M_000010; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
CTTGGGTCATCTTCAACGAGGGGAATGAGTCCTAGACTGAGGAATGGTTT
GGATGATAATTTGGTAACTAGGCTGTCGATTTTGAGCTTTGTTGGTGATG
[A/G]TTTTAAGATTGGGGAGAACAAAGTTTCGGATGCTAATTTGTTGAG
GCTACTTCATAACCGGTGGTTGCAGTGGCGTTTTGTTAATGCTAGAGCAG
ATGCT