help  | faq  | software  | ARAPORT

Gene : EMB1080 A. thaliana

Gene ID  ? AT3G48930
Brief Description  Nucleic acid-binding, OB-fold-like protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? embryo defective 1080 (EMB1080); FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: translation, embryo development ending in seed dormancy; LOCATED IN: cytosolic small ribosomal subunit, cytosolic ribosome, cell wall, membrane; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Nucleic acid-binding, OB-fold-like (InterPro:IPR016027), Nucleic acid-binding, OB-fold (InterPro:IPR012340), Ribosomal protein S17, archaeal (InterPro:IPR019978), Ribosomal protein S17, conserved site (InterPro:IPR019979), Ribosomal protein S17 (InterPro:IPR000266); BEST Arabidopsis thaliana protein match is: ribosomal protein S11-beta (TAIR:AT5G23740.1).  Source: TAIR, Jun 30, 2015.
Name  ? embryo defective 1080

Locus History Displayer

Publication Counts Displayer

0 GeneRIFs (Gene References Into Functions)

Data Source: NCBI


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
AT3G48930 0.5kb upstream 0.5kb upstream 2011   true Chr3: 18140771-18142781
AT3G48930 0.5kb upstream 0.5kb upstream 500   false Chr3: 18142282-18142781
AT3G48930 0.5kb downstream 0.5kb downstream 2011   true Chr3: 18140271-18142281
AT3G48930 0.5kb downstream 0.5kb downstream 500   false Chr3: 18140271-18140770
AT3G48930 1.0kb upstream 1.0kb upstream 2511   true Chr3: 18140771-18143281
AT3G48930 1.0kb upstream 1.0kb upstream 1000   false Chr3: 18142282-18143281
AT3G48930 1.0kb downstream 1.0kb downstream 2511   true Chr3: 18139771-18142281
AT3G48930 1.0kb downstream 1.0kb downstream 1000   false Chr3: 18139771-18140770
AT3G48930 3.0kb upstream 3.0kb upstream 4511   true Chr3: 18140771-18145281
AT3G48930 3.0kb upstream 3.0kb upstream 3000   false Chr3: 18142282-18145281
AT3G48930 3.0kb downstream 3.0kb downstream 4511   true Chr3: 18137771-18142281
AT3G48930 3.0kb downstream 3.0kb downstream 3000   false Chr3: 18137771-18140770


Protein Displayer


Gene Ontology Displayer

1 Pathways

Data Source: KEGG

Identifier Name
03010 Ribosome

Gene --> Ontology term

Gene --> Pathways


Plant Ontology Displayer

Bar Efp Browser Displayer

Array Expression

RNA-seq Expression


Save / Export






Cytoscape Network Displayer


Homologue Displayer

Phytomine Ortholog Displayer


Alelle Table Displayer

Stock Gene Table Displayer



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
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