help  | faq  | software  | ARAPORT

Gene : SYP21 A. thaliana

Gene ID  ? AT5G16830
Brief Description  syntaxin of plants 21  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? syntaxin of plants 21 (SYP21); CONTAINS InterPro DOMAIN/s: Target SNARE coiled-coil domain (InterPro:IPR000727), Syntaxin/epimorphin, conserved site (InterPro:IPR006012), t-SNARE (InterPro:IPR010989), Syntaxin, N-terminal (InterPro:IPR006011); BEST Arabidopsis thaliana protein match is: Syntaxin/t-SNARE family protein (TAIR:AT5G46860.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? member of SYP2 Gene Family. Over-expression of the gene in tobacco protoplasts leads to a disruption of vacuolar transport from the prevacuolar compartment (PVC) to the vacuole, but not from the Golgi apparatus to the plasma membrane.  Source: TAIR, Jun 30, 2015.
Name  ? syntaxin of plants 21
  • synonyms:
  • PEP12P,
  • ATPEP12,
  • ATSYP21,
  • PEP12

Locus History Displayer

Publication Counts Displayer

3 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
PEP12/SYP21 is involved in vacuolar sorting and excess of this syntaxin in the prevacuolar complex can be detrimental for further transport from this organelle. 16935987
The functions of VAM3/SYP22 and PEP12/SYP21 are redundant and interchangeable. 21105932
SYP21, SYP22 and SYP23 function redundantly in vacuolar protein transport, vein patterning, myrosin cell differentiation and plant growth. 21143674

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
AT5G16830 0.5kb upstream 0.5kb upstream 2950   true Chr5: 5532846-5535795
AT5G16830 0.5kb upstream 0.5kb upstream 500   false Chr5: 5535296-5535795
AT5G16830 0.5kb downstream 0.5kb downstream 2950   true Chr5: 5532346-5535295
AT5G16830 0.5kb downstream 0.5kb downstream 500   false Chr5: 5532346-5532845
AT5G16830 1.0kb upstream 1.0kb upstream 3450   true Chr5: 5532846-5536295
AT5G16830 1.0kb upstream 1.0kb upstream 1000   false Chr5: 5535296-5536295
AT5G16830 1.0kb downstream 1.0kb downstream 3450   true Chr5: 5531846-5535295
AT5G16830 1.0kb downstream 1.0kb downstream 1000   false Chr5: 5531846-5532845
AT5G16830 3.0kb upstream 3.0kb upstream 5450   true Chr5: 5532846-5538295
AT5G16830 3.0kb upstream 3.0kb upstream 3000   false Chr5: 5535296-5538295
AT5G16830 3.0kb downstream 3.0kb downstream 5450   true Chr5: 5529846-5535295
AT5G16830 3.0kb downstream 3.0kb downstream 3000   false Chr5: 5529846-5532845

Proteins

Protein Displayer


Function

Gene Ontology Displayer

2 Pathways

Data Source: KEGG

Identifier Name
04145 Phagosome
04130 SNARE interactions in vesicular transport

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 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
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139