help  | faq  | software  | ARAPORT

Gene : VPS2.1 A. thaliana

Gene ID  ? AT2G06530
Brief Description  SNF7 family protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? VPS2.1; CONTAINS InterPro DOMAIN/s: Snf7 (InterPro:IPR005024); BEST Arabidopsis thaliana protein match is: vacuolar protein sorting-associated protein 2.3 (TAIR:AT1G03950.1).  Source: TAIR, Jun 30, 2015.

Locus History Displayer

Publication Counts Displayer

2 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
AMSH3 interacts with ESCRT-III subunits VPS2.1 and VPS24.1. The interaction of ESCRT-III subunits with AMSH3 is mediated by the MIM1 domain and depends on the MIT domain of AMSH3. 21810997
Data show that AMSH1, an AMSH3-related DUB, interacts with the ESCRT-III subunit vacuolar protein sorting2.1 (VPS2.1) and that impairment of both AMSH1 and VPS2.1 causes early senescence and hypersensitivity to artificial carbon starvation in the dark. 23800962

Genomics

Sequence Feature Displayer

Gene Structure Displayer

J Browse Displayer

Overlapping Features Displayer

12 Flanking Regions

Flank size: from most upstream transcription start site, or most downstream transcription stop site

Region Name Flank Size Direction Length Gene Included? Chromosome Location
AT2G06530 0.5kb upstream 0.5kb upstream 2509   true Chr2: 2588523-2591031
AT2G06530 0.5kb upstream 0.5kb upstream 500   false Chr2: 2590532-2591031
AT2G06530 0.5kb downstream 0.5kb downstream 2509   true Chr2: 2588023-2590531
AT2G06530 0.5kb downstream 0.5kb downstream 500   false Chr2: 2588023-2588522
AT2G06530 1.0kb upstream 1.0kb upstream 3009   true Chr2: 2588523-2591531
AT2G06530 1.0kb upstream 1.0kb upstream 1000   false Chr2: 2590532-2591531
AT2G06530 1.0kb downstream 1.0kb downstream 3009   true Chr2: 2587523-2590531
AT2G06530 1.0kb downstream 1.0kb downstream 1000   false Chr2: 2587523-2588522
AT2G06530 3.0kb upstream 3.0kb upstream 5009   true Chr2: 2588523-2593531
AT2G06530 3.0kb upstream 3.0kb upstream 3000   false Chr2: 2590532-2593531
AT2G06530 3.0kb downstream 3.0kb downstream 5009   true Chr2: 2585523-2590531
AT2G06530 3.0kb downstream 3.0kb downstream 3000   false Chr2: 2585523-2588522

Proteins

Protein Displayer


Function

Gene Ontology Displayer

1 Pathways

Data Source: KEGG

Identifier Name
04144 Endocytosis

Gene --> Ontology term

Gene --> Pathways


Expression

Plant Ontology Displayer

Bar Efp Browser Displayer

Array Expression

RNA-seq Expression

Co-expression

Save / Export

 

 

 

 



Interactions

Cytoscape Network Displayer


Homology

Homologue Displayer

Phytomine Ortholog Displayer


Stocks

Alelle Table Displayer

Stock Gene Table Displayer


 

Other

12 Data Sets

Name Description Version
BAR Annotations Lookup Mapping(s) between AGI locus and Affy Probeset identifier 10/08/2013
Genome Annotation Araport11 protein-coding, non-coding and transposable element genes Araport11 (06/2016)
RNA-seq expression Measure of gene expression levels (Transcripts per Million, TPM) quantified by Salmon Araport11 (06/2016)
PubMed to gene mapping Curated associations between publications and NCBI Gene records 8/12/2016
GO Annotation from InterPro    
PO Annotation from TAIR Literature-based annotations of genes to Plant Ontology (PO) terms 06/30/2015
Swiss-Prot data set High-quality, manually annotated, non-redundant protein sequence database 2016_07
Panther data set PANTHER paralogs from Arabidopsis 11.0
KEGG pathways data set Wiring diagrams of molecular interactions, reactions, and relations 79.0
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016
IntAct interactions data set Curated binary and complex protein-protein interactions for Arabidopsis thaliana 8/02/2016
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139