UCD_Gh_M_000009, UCD_Gh_M_000009 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000009
AliasGh_M_000009
Tm1_Mira454_Contig_1300_1239
dbSNP IDN/A
TypeSNP
SNP AllelesG/A
5' Flanking SequenceTAAGCTTGGGTCATCTTCAACGAGGGGAATGAGTCCTAGACTGAGGAATGGTTTGGATGA TAATTTGGTAACTAGGCTGTCGATTTTGAGCTTTGTTGGT
3' Flanking SequenceATGGTTTTAAGATTGGGGAGAACAAAGTTTCGGATGCTAATTTGTTGAGGCTACTTCATA ACCGGTGGTTGCAGTGGCGTTTTGTTAATGCTAGAGCAGA
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
CM018203.1chromosomeCM018203.1:20174804..20175004 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr03_CRI-A2_v1.0.a1chromosomeChr03_CRI-A2_v1.0.a1:22509443..22509643 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
CM016616.1chromosomeCM016616.1:122990283..122990483 +Gossypium australe (G2) genome CRI_v1.1n/a
At_chr3chromosomeAt_chr3:34050171..34050371 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A02chromosomeA02:20645499..20645699 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A02chromosomeGhir_A02:21467563..21467763 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A02chromosomeA02:20051812..20052012 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A02chromosomeA02:20880141..20880341 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A02chromosomeA02:20628276..20628476 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_A02chromosomeGbar_A02:20247600..20247800 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A02chromosomeA02:20178138..20178338 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017611.1chromosomeCM017611.1:20661116..20661316 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017637.1chromosomeCM017637.1:21328089..21328289 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017689.1chromosomeCM017689.1:20598221..20598421 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A02chromosomeA02:21037314..21037514 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr03chromosomeChr03:109901120..109901320 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr03chromosomeChr03:108373514..108373714 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
B_03chromosomeB_03:85286571..85286771 +Gossypium anomalum (B1) genome NSF_v1n/a
F03chromosomeF03:20606918..20607118 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr03chromosomeChr03:167657370..167657570 +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_000009 ID=UCD_Gh_M_000009; Name=UCD_Gh_M_000009; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
TAAGCTTGGGTCATCTTCAACGAGGGGAATGAGTCCTAGACTGAGGAATG
GTTTGGATGATAATTTGGTAACTAGGCTGTCGATTTTGAGCTTTGTTGGT
[A/G]ATGGTTTTAAGATTGGGGAGAACAAAGTTTCGGATGCTAATTTGT
TGAGGCTACTTCATAACCGGTGGTTGCAGTGGCGTTTTGTTAATGCTAGA
GCAGA