help  | faq  | software  | ARAPORT

Gene : TOPP8 A. thaliana

Gene ID  ? AT5G27840
Brief Description  Calcineurin-like metallo-phosphoesterase superfamily protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? TOPP8; CONTAINS InterPro DOMAIN/s: Metallophosphoesterase (InterPro:IPR004843), Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphatase (InterPro:IPR006186); BEST Arabidopsis thaliana protein match is: Calcineurin-like metallo-phosphoesterase superfamily protein (TAIR:AT3G05580.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? encodes a serine/threonine protein phosphatase expressed in expressed in roots, rosettes and flowers.  Source: TAIR, Jun 30, 2015.

Locus History Displayer

Publication Counts Displayer

0 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

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
AT5G27840 0.5kb upstream 0.5kb upstream 2750   true Chr5: 9862923-9865672
AT5G27840 0.5kb upstream 0.5kb upstream 500   false Chr5: 9865173-9865672
AT5G27840 0.5kb downstream 0.5kb downstream 2750   true Chr5: 9862423-9865172
AT5G27840 0.5kb downstream 0.5kb downstream 500   false Chr5: 9862423-9862922
AT5G27840 1.0kb upstream 1.0kb upstream 3250   true Chr5: 9862923-9866172
AT5G27840 1.0kb upstream 1.0kb upstream 1000   false Chr5: 9865173-9866172
AT5G27840 1.0kb downstream 1.0kb downstream 3250   true Chr5: 9861923-9865172
AT5G27840 1.0kb downstream 1.0kb downstream 1000   false Chr5: 9861923-9862922
AT5G27840 3.0kb upstream 3.0kb upstream 5250   true Chr5: 9862923-9868172
AT5G27840 3.0kb upstream 3.0kb upstream 3000   false Chr5: 9865173-9868172
AT5G27840 3.0kb downstream 3.0kb downstream 5250   true Chr5: 9859923-9865172
AT5G27840 3.0kb downstream 3.0kb downstream 3000   false Chr5: 9859923-9862922

Proteins

Protein Displayer


Function

Gene Ontology Displayer

2 Pathways

Data Source: KEGG

Identifier Name
03015 mRNA surveillance pathway
04931 Insulin resistance

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

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 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
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