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Gene : AT4G13040 A. thaliana

Gene ID  ? AT4G13040
Brief Description  Integrase-type DNA-binding superfamily protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? Integrase-type DNA-binding superfamily protein; FUNCTIONS IN: DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: nucleus; CONTAINS InterPro DOMAIN/s: DNA-binding, integrase-type (InterPro:IPR016177), Pathogenesis-related transcriptional factor/ERF, DNA-binding (InterPro:IPR001471).  Source: TAIR, Jun 30, 2015.

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2 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
At4g13040 (referred herein as Apetala 2 family protein involved in SA mediated disease defense 1 - APD1) is a positive regulator of disease defense that functions upstream of salicylic acid (SA) accumulation. 24612849
At4g13040 At4g13040 At4g13040 26063506


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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
AT4G13040 0.5kb upstream 0.5kb upstream 3243   true Chr4: 7612713-7615955
AT4G13040 0.5kb upstream 0.5kb upstream 500   false Chr4: 7612713-7613212
AT4G13040 0.5kb downstream 0.5kb downstream 3243   true Chr4: 7613213-7616455
AT4G13040 0.5kb downstream 0.5kb downstream 500   false Chr4: 7615956-7616455
AT4G13040 1.0kb upstream 1.0kb upstream 3743   true Chr4: 7612213-7615955
AT4G13040 1.0kb upstream 1.0kb upstream 1000   false Chr4: 7612213-7613212
AT4G13040 1.0kb downstream 1.0kb downstream 3743   true Chr4: 7613213-7616955
AT4G13040 1.0kb downstream 1.0kb downstream 1000   false Chr4: 7615956-7616955
AT4G13040 3.0kb upstream 3.0kb upstream 5743   true Chr4: 7610213-7615955
AT4G13040 3.0kb upstream 3.0kb upstream 3000   false Chr4: 7610213-7613212
AT4G13040 3.0kb downstream 3.0kb downstream 5743   true Chr4: 7613213-7618955
AT4G13040 3.0kb downstream 3.0kb downstream 3000   false Chr4: 7615956-7618955


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0 Pathways

Data Source: KEGG

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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
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139