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Gene : VPS35A A. thaliana

Gene ID  ? AT2G17790
Brief Description  vacuolar protein sorting-associated 35A-like protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? VPS35 homolog A (VPS35A); CONTAINS InterPro DOMAIN/s: Vacuolar protein sorting-associated protein 35 (InterPro:IPR005378); BEST Arabidopsis thaliana protein match is: VPS35 homolog B (TAIR:AT1G75850.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Encodes a protein with similarity to yeast VPS35 which encodes a component of the retromer involved in retrograde endosomal transport. Mutants partially suppress the loss of VTI11 function in Arabidopsis and restores gravitropism in the double mutant.  Source: TAIR, Jun 30, 2015.
Name  ? VPS35 homolog A
  • synonyms:
  • ZIG suppressor 3,
  • ZIP3

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4 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
findings suggest that VPS35, mainly VPS35b, is involved in sorting proteins to PSVs in seeds, possibly by recycling VSR from PVCs to the Golgi complex, and is also involved in plant growth and senescence in vegetative organs 18222962
zip3 is a loss-of-function mutant of VPS35A. Expression of VPS35B or VPS35C cannot complement the function of VPS35A. 20086190
Arabidopsis Rab7 homolog RABG3f participates in the recruitment of the core retromer to the endosomal membrane by interacting with VPS35 23362252
show that, out of the three VPS35 retromer subunits present in Arabidopsis thaliana genome, the VPS35 homolog A plays a prevailing role in trafficking to the lytic vacuole 23770835

Genomics

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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
AT2G17790 0.5kb upstream 0.5kb upstream 6613   true Chr2: 7733063-7739675
AT2G17790 0.5kb upstream 0.5kb upstream 500   false Chr2: 7733063-7733562
AT2G17790 0.5kb downstream 0.5kb downstream 6613   true Chr2: 7733563-7740175
AT2G17790 0.5kb downstream 0.5kb downstream 500   false Chr2: 7739676-7740175
AT2G17790 1.0kb upstream 1.0kb upstream 7113   true Chr2: 7732563-7739675
AT2G17790 1.0kb upstream 1.0kb upstream 1000   false Chr2: 7732563-7733562
AT2G17790 1.0kb downstream 1.0kb downstream 7113   true Chr2: 7733563-7740675
AT2G17790 1.0kb downstream 1.0kb downstream 1000   false Chr2: 7739676-7740675
AT2G17790 3.0kb upstream 3.0kb upstream 9113   true Chr2: 7730563-7739675
AT2G17790 3.0kb upstream 3.0kb upstream 3000   false Chr2: 7730563-7733562
AT2G17790 3.0kb downstream 3.0kb downstream 9113   true Chr2: 7733563-7742675
AT2G17790 3.0kb downstream 3.0kb downstream 3000   false Chr2: 7739676-7742675

Proteins

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Function

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1 Pathways

Data Source: KEGG

Identifier Name
04144 Endocytosis

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Expression

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Interactions

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11 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 GOC GO annotations assigned by the GO Consortium 8/01/2016
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