UCD_Gh_M_000227, UCD_Gh_M_000227 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000227
AliasGh_M_000227
Tm1_Mira454_Contig_738_824
dbSNP IDN/A
TypeSNP
SNP AllelesT/C
5' Flanking SequenceACTGGTGCATAGAATGCAATGATGTTAATCCCCGTAAGCTGTTGAAAAAATGGTATTGCA ATTGACATAACCAGGTGAGGCCGATATTGCCTCTCAAATA
3' Flanking SequenceGGTAACAAAGGGCTCTCTCTTTGCTTCATTGGCTACATCACTGGCCTTTTTTAACTCAGC CAGCTCAGCTTCCACATCACAATCTTTCCCTCGGACTTTT
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
CM018219.1chromosomeCM018219.1:20057029..20057229 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:22173905..22174105 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:22701198..22701398 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:41507071..41507271 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016618.1chromosomeCM016618.1:89574010..89574210 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr9chromosomeDt_chr9:48306152..48306352 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:20448265..20448465 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:20550330..20550530 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:20084213..20084413 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:20400838..20401038 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:20277163..20277363 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:22893357..22893557 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D05chromosomeGbar_D05:20419777..20419977 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:21842569..21842769 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:20431495..20431695 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:22532598..22532798 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:20263487..20263687 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:22316050..22316250 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:20704757..20704957 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:22672740..22672940 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:20375389..20375589 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:20861894..20862094 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:24270274..24270474 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:22613781..22613981 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:18932616..18932816 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:63793302..63793502 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:19545078..19545278 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:17473744..17473944 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr09chromosomeChr09:20177427..20177627 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09_2984501chromosomeChr09_2984501:1749..1949 -Gossypium aridum (D4) genome ISU_v1n/a
Chr09chromosomeChr09:14484590..14484790 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:16836745..16836945 +Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:24582876..24583076 +Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:19436239..19436439 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr05chromosomeChr05:107770666..107770866 -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_000227 ID=UCD_Gh_M_000227; Name=UCD_Gh_M_000227; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
ACTGGTGCATAGAATGCAATGATGTTAATCCCCGTAAGCTGTTGAAAAAA
TGGTATTGCAATTGACATAACCAGGTGAGGCCGATATTGCCTCTCAAATA
[C/T]GGTAACAAAGGGCTCTCTCTTTGCTTCATTGGCTACATCACTGGC
CTTTTTTAACTCAGCCAGCTCAGCTTCCACATCACAATCTTTCCCTCGGA
CTTTT