UCD_Gh_M_000316, UCD_Gh_M_000316 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000316
AliasGh_M_000316
Tm1_Mira454_Contig_1287_892
dbSNP IDN/A
TypeSNP
SNP AllelesA/G
5' Flanking SequenceCCTTGTTTAAAACACCACACTTTGCATACATATTGACGAGAGCCGTCCCGATAACCGCAT CCAGTGGTATTCCTTCCTCTTCCACATAATTACCTATGCA
3' Flanking SequenceAGTCCTATATTTATAGCTCCGGAGGCAGCACAAGCTGAAAGCAAAGATACCAATGTAGTC GAATTAGGCTTTACTTGCATAACTTTCATGAGACGTAGTA
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
CM018214.1chromosomeCM018214.1:18870506..18870706 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr13_CRI-A2_v1.0.a1chromosomeChr13_CRI-A2_v1.0.a1:20672060..20672260 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
Dt_chr8chromosomeDt_chr8:25702861..25703061 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A13chromosomeA13:18019152..18019352 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A13chromosomeGhir_A13:18414307..18414507 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A13chromosomeA13:18847564..18847764 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A13chromosomeA13:18368019..18368219 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A13chromosomeA13:19047750..19047950 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_A13chromosomeGbar_A13:18864268..18864468 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A13chromosomeA13:18912934..18913134 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017622.1chromosomeCM017622.1:19053168..19053368 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017648.1chromosomeCM017648.1:19855744..19855944 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017700.1chromosomeCM017700.1:18806936..18807136 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A13chromosomeA13:19699728..19699928 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr13chromosomeChr13:19186437..19186637 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr13chromosomeChr13:20505789..20505989 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
E13chromosomeE13:19739203..19739403 -Gossypium stocksii (E1) genome NSF_v1n/a
Germplasm
Stock NameType
Acala Maxxaaccession
PD-1accession
Sealand 542accession
Fibermax 832accession
TM-1accession
Sequence
>UCD_Gh_M_000316 ID=UCD_Gh_M_000316; Name=UCD_Gh_M_000316; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
CCTTGTTTAAAACACCACACTTTGCATACATATTGACGAGAGCCGTCCCG
ATAACCGCATCCAGTGGTATTCCTTCCTCTTCCACATAATTACCTATGCA
[A/G]AGTCCTATATTTATAGCTCCGGAGGCAGCACAAGCTGAAAGCAAA
GATACCAATGTAGTCGAATTAGGCTTTACTTGCATAACTTTCATGAGACG
TAGTA