help  | faq  | software  | ARAPORT

Gene : AT2G04540 A. thaliana

Gene ID  ? AT2G04540
Brief Description  Beta-ketoacyl synthase  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? Beta-ketoacyl synthase; FUNCTIONS IN: transferase activity, transferring acyl groups other than amino-acyl groups, fatty acid synthase activity, catalytic activity; INVOLVED IN: biosynthetic process, fatty acid biosynthetic process, metabolic process; LOCATED IN: mitochondrion; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Beta-ketoacyl synthase (InterPro:IPR000794), Thiolase-like (InterPro:IPR016039), Beta-ketoacyl synthase, C-terminal (InterPro:IPR014031), 3-oxoacyl-[acyl-carrier-protein] synthase 2 (InterPro:IPR017568), Beta-ketoacyl synthase, N-terminal (InterPro:IPR014030), Thiolase-like, subgroup (InterPro:IPR016038), Beta-ketoacyl synthase, active site (InterPro:IPR018201); BEST Arabidopsis thaliana protein match is: 3-ketoacyl-acyl carrier protein synthase I (TAIR:AT5G46290.1).  Source: TAIR, Jun 30, 2015.

Locus History Displayer

Publication Counts Displayer

1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
encodes beta-ketoacyl-[acyl carrier protein] synthase(mtKAS), but mitochondrial protein lipoylation does not exclusively depend on the mtKAS pathway of lipoate biosynthesis in leaves and may occur independently of this pathway in roots 17616510

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
AT2G04540 0.5kb upstream 0.5kb upstream 3827   true Chr2: 1581376-1585202
AT2G04540 0.5kb upstream 0.5kb upstream 500   false Chr2: 1584703-1585202
AT2G04540 0.5kb downstream 0.5kb downstream 3827   true Chr2: 1580876-1584702
AT2G04540 0.5kb downstream 0.5kb downstream 500   false Chr2: 1580876-1581375
AT2G04540 1.0kb upstream 1.0kb upstream 4327   true Chr2: 1581376-1585702
AT2G04540 1.0kb upstream 1.0kb upstream 1000   false Chr2: 1584703-1585702
AT2G04540 1.0kb downstream 1.0kb downstream 4327   true Chr2: 1580376-1584702
AT2G04540 1.0kb downstream 1.0kb downstream 1000   false Chr2: 1580376-1581375
AT2G04540 3.0kb upstream 3.0kb upstream 6327   true Chr2: 1581376-1587702
AT2G04540 3.0kb upstream 3.0kb upstream 3000   false Chr2: 1584703-1587702
AT2G04540 3.0kb downstream 3.0kb downstream 6327   true Chr2: 1578376-1584702
AT2G04540 3.0kb downstream 3.0kb downstream 3000   false Chr2: 1578376-1581375

Proteins

Protein Displayer


Function

Gene Ontology Displayer

4 Pathways

Data Source: KEGG

Identifier Name
01100 Metabolic pathways
01212 Fatty acid metabolism
00061 Fatty acid biosynthesis
00780 Biotin metabolism

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

10 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 TIGR GO annotations assigned by TIGR Arabidopsis annotation effort 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