help  | faq  | software  | ARAPORT

Gene : SDP1 A. thaliana

Gene ID  ? AT5G04040
Brief Description  Patatin-like phospholipase family protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? SUGAR-DEPENDENT1 (SDP1); CONTAINS InterPro DOMAIN/s: Acyl transferase/acyl hydrolase/lysophospholipase (InterPro:IPR016035), Protein of unknown function DUF3336 (InterPro:IPR021771), ARF/SAR superfamily (InterPro:IPR006689), Patatin (InterPro:IPR002641); BEST Arabidopsis thaliana protein match is: sugar-dependent 1-like (TAIR:AT3G57140.2).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Encodes a triacylglycerol lipase that is involved in storage lipid breakdown during seed germination. The mutant plant exhibits a much slower rate of postgerminative growth than the wild type.  Source: TAIR, Jun 30, 2015.
Name  ? SUGAR-DEPENDENT1

Locus History Displayer

Publication Counts Displayer

6 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
SDP1 encodes a lipase that initiates oil breakdown in germinating Arabidopsis seeds. [SDP1] 16473965
together SDP1 and SDP1L account for at least 95% of the rate of triacylglycerol hydrolysis in Arabidopsis seeds, and that this hydrolysis is important but not essential for seed germination or seedling establishment. 21825108
RNAi suppression during seed development results in a gain in oil yield 23171303
SDP1 limits triacylglycerol accumulation in vegetative tissues of Arabidopsis. 23686420
Data show that PHOSPHOLIPID:DIACYLGLYCEROL ACYLTRANSFERASE1 (PDAT1) and SUGAR-DEPENDENT1 (SDP1) TAG lipase, function synergistically in directing fatty acids (FAs) toward peroxisomal beta-oxidation via triacylglycerol (TAG) intermediates. 25293755
Arabidopsis SDP1 lipase is delivered to oil bodies by peroxisome extensions 25775518

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
AT5G04040 0.5kb upstream 0.5kb upstream 4363   true Chr5: 1088842-1093204
AT5G04040 0.5kb upstream 0.5kb upstream 500   false Chr5: 1088842-1089341
AT5G04040 0.5kb downstream 0.5kb downstream 4363   true Chr5: 1089342-1093704
AT5G04040 0.5kb downstream 0.5kb downstream 500   false Chr5: 1093205-1093704
AT5G04040 1.0kb upstream 1.0kb upstream 4863   true Chr5: 1088342-1093204
AT5G04040 1.0kb upstream 1.0kb upstream 1000   false Chr5: 1088342-1089341
AT5G04040 1.0kb downstream 1.0kb downstream 4863   true Chr5: 1089342-1094204
AT5G04040 1.0kb downstream 1.0kb downstream 1000   false Chr5: 1093205-1094204
AT5G04040 3.0kb upstream 3.0kb upstream 6863   true Chr5: 1086342-1093204
AT5G04040 3.0kb upstream 3.0kb upstream 3000   false Chr5: 1086342-1089341
AT5G04040 3.0kb downstream 3.0kb downstream 6863   true Chr5: 1089342-1096204
AT5G04040 3.0kb downstream 3.0kb downstream 3000   false Chr5: 1093205-1096204

Proteins

Protein Displayer


Function

Gene Ontology Displayer

9 Pathways

Data Source: KEGG

Identifier Name
01100 Metabolic pathways
01110 Biosynthesis of secondary metabolites
00561 Glycerolipid metabolism
00564 Glycerophospholipid metabolism
00592 alpha-Linolenic acid metabolism
00565 Ether lipid metabolism
00100 Steroid biosynthesis
00591 Linoleic acid metabolism
00590 Arachidonic acid 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 UniProt GO annotations assigned by UniProt 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