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Gene : RAD4 A. thaliana

Gene ID  ? AT5G16630
Brief Description  DNA repair protein Rad4 family  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? RAD4; FUNCTIONS IN: damaged DNA binding; INVOLVED IN: nucleotide-excision repair; LOCATED IN: nucleus, chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Transglutaminase-like (InterPro:IPR002931), DNA repair protein Rad4, DNA-binding domain 1 (InterPro:IPR018326), DNA repair protein Rad4, DNA-binding domain 3 (InterPro:IPR018328), DNA repair protein Rad4, DNA-binding domain 2 (InterPro:IPR018327), DNA repair protein Rad4, transglutaminase-like domain (InterPro:IPR018325), DNA repair protein Rad4 (InterPro:IPR004583).  Source: TAIR, Jun 30, 2015.

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1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
RAD4 interacts with the distal EF-hand Ca(2+) binding domain of CEN2 and this interaction is required for efficient nucleotide excision repair. [RAD4] 16786311

Genomics

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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
AT5G16630 0.5kb upstream 0.5kb upstream 5494   true Chr5: 5454154-5459647
AT5G16630 0.5kb upstream 0.5kb upstream 500   false Chr5: 5454154-5454653
AT5G16630 0.5kb downstream 0.5kb downstream 5494   true Chr5: 5454654-5460147
AT5G16630 0.5kb downstream 0.5kb downstream 500   false Chr5: 5459648-5460147
AT5G16630 1.0kb upstream 1.0kb upstream 5994   true Chr5: 5453654-5459647
AT5G16630 1.0kb upstream 1.0kb upstream 1000   false Chr5: 5453654-5454653
AT5G16630 1.0kb downstream 1.0kb downstream 5994   true Chr5: 5454654-5460647
AT5G16630 1.0kb downstream 1.0kb downstream 1000   false Chr5: 5459648-5460647
AT5G16630 3.0kb upstream 3.0kb upstream 7994   true Chr5: 5451654-5459647
AT5G16630 3.0kb upstream 3.0kb upstream 3000   false Chr5: 5451654-5454653
AT5G16630 3.0kb downstream 3.0kb downstream 7994   true Chr5: 5454654-5462647
AT5G16630 3.0kb downstream 3.0kb downstream 3000   false Chr5: 5459648-5462647

Proteins

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Function

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1 Pathways

Data Source: KEGG

Identifier Name
03420 Nucleotide excision repair

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Expression

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Interactions

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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
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