UCD_Gh_M_000108, UCD_Gh_M_000108 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000108
AliasGh_M_000108
Tm1_Mira454_Contig_140_935
dbSNP IDN/A
TypeSNP
SNP AllelesG/A
5' Flanking SequenceACCCTGTGAAGAAGACTCTTTCTTGGACGATTTTCCTTTCCCTTTTCCTTTCTGATTGTT CCACTTATTAGAAAATGCATCAAAACTGAAAGGCCCTCCC
3' Flanking SequenceGTCCAAAGGATGAGAGACTAATGGTGGCTGCCTTTGCAGCCAAAGGATTGAACTTTGGTG GGGCTGTTTCGGTCTCAGCTTTCTCAATACGCAAGGATGA
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
CM018219.1chromosomeCM018219.1:31130985..31131183 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:29659360..29659558 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_05chromosomeD10_05:30599085..30599283 -Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr9chromosomeDt_chr9:31960916..31961114 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:31900196..31900394 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:32039734..32039932 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:31186198..31186396 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:31874218..31874416 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:31496342..31496540 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D05chromosomeGbar_D05:31682475..31682673 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:31435676..31435874 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:31548615..31548813 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:32048256..32048454 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:31515259..31515457 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:32593804..32594002 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:29808143..29808341 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr09chromosomeChr09:30452885..30453083 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:26606279..26606477 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:25647354..25647552 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:31716218..31716416 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:24191236..24191434 +Gossypium aridum (D4) genome ISU_v1n/a
Chr09chromosomeChr09:21365258..21365456 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:24620249..24620447 +Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:44738893..44739091 +Gossypium stocksii (E1) genome NSF_v1n/a
Germplasm
Stock NameType
Acala Maxxaaccession
PD-1accession
Sealand 542accession
Fibermax 832accession
TM-1accession
Sequence
>UCD_Gh_M_000108 ID=UCD_Gh_M_000108; Name=UCD_Gh_M_000108; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
ACCCTGTGAAGAAGACTCTTTCTTGGACGATTTTCCTTTCCCTTTTCCTT
TCTGATTGTTCCACTTATTAGAAAATGCATCAAAACTGAAAGGCCCTCCC
[A/G]GTCCAAAGGATGAGAGACTAATGGTGGCTGCCTTTGCAGCCAAAG
GATTGAACTTTGGTGGGGCTGTTTCGGTCTCAGCTTTCTCAATACGCAAG
GATGA