UCD_Gh_M_000384, UCD_Gh_M_000384 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000384
AliasGh_M_000384
Tm1_Mira454_Contig_1578_862
dbSNP IDN/A
TypeSNP
SNP AllelesC/G
5' Flanking SequenceGCCAGATGGTCAAGCAGTTGTTCAAAGCCAGCTCTGGAGCGACGGAAATTAAAAGTAGGG AGATTGCTTTCATGTGGACTTGAAGTAAACAAATTTAGAA
3' Flanking SequenceTCCAGTTCTAGACATAGTATGTCCAACCACATATTCCTCAGCATCTGCTTCTTCCCATTC ACCATCTTCATCCCCTTCATCATCTTCTTCTGGTTCATCC
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
CM018216.1chromosomeCM018216.1:112045..112245 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_03chromosomeD5_03:62921555..62921755 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
At_chr1chromosomeAt_chr1:106854988..106855188 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D02chromosomeD02:124083..124283 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D02chromosomeGhir_D02:122760..122960 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D02chromosomeD02:125160..125360 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D02chromosomeD02:125164..125364 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D02chromosomeD02:124940..125140 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D02chromosomeGbar_D02:119746..119946 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D02chromosomeD02:116879..117079 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017624.1chromosomeCM017624.1:117302..117502 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017650.1chromosomeCM017650.1:128794..128994 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017689.1chromosomeCM017689.1:76510..76710 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D02chromosomeD02:145099..145299 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr03chromosomeChr03:109354..109554 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_03chromosomeB_03:106991666..106991866 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr05chromosomeChr05:95158..95358 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_05chromosomeChr_05:65242..65442 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr05chromosomeChr05:98470..98670 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr05chromosomeChr05:81974..82174 -Gossypium aridum (D4) genome ISU_v1n/a
F03chromosomeF03:155445..155645 -Gossypium longicalyx (F1) genome NSF_v1n/a
Germplasm
Stock NameType
Acala Maxxaaccession
PD-1accession
Sealand 542accession
Fibermax 832accession
TM-1accession
Sequence
>UCD_Gh_M_000384 ID=UCD_Gh_M_000384; Name=UCD_Gh_M_000384; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
GCCAGATGGTCAAGCAGTTGTTCAAAGCCAGCTCTGGAGCGACGGAAATT
AAAAGTAGGGAGATTGCTTTCATGTGGACTTGAAGTAAACAAATTTAGAA
[C/G]TCCAGTTCTAGACATAGTATGTCCAACCACATATTCCTCAGCATC
TGCTTCTTCCCATTCACCATCTTCATCCCCTTCATCATCTTCTTCTGGTT
CATCC