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Gene : AT2G42940 A. thaliana

Gene ID  ? AT2G42940
Brief Description  Putative AT-hook DNA-binding family protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? Predicted AT-hook DNA-binding family protein; FUNCTIONS IN: DNA binding; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: leaf whorl, sepal, flower; EXPRESSED DURING: petal differentiation and expansion stage; CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF296 (InterPro:IPR005175), AT hook, DNA-binding motif (InterPro:IPR017956), Predicted AT-hook DNA-binding (InterPro:IPR014476); BEST Arabidopsis thaliana protein match is: Predicted AT-hook DNA-binding family protein (TAIR:AT2G35270.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Encodes a nuclear matrix protein with AT-hook DNA binding motifs that acts in the maintenance of genomic integrity by silencing TEs and repeat-containing genes through epigenetic machinery. It interacts with FVE and MSI5 which are components of HDAC corepressor complexes. It is expressed in tapetum during the tetrad stage.  Source: TAIR, Jun 30, 2015.
  • synonyms:
  • AHL16,
  • AT-hook motif nuclear-localized protein 16,
  • TEK,
  • TRANSPOSABLE ELEMENT SILENCING VIA AT-HOOK

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1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
MADS AFFECTING FLOWERING 4 (MAF4) and MAF5 are upregulated in TEK knockdown plants. TEK negatively regulates floral repressors including MAF4 and MAF5. [TEK] 23733063

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
AT2G42940 0.5kb upstream 0.5kb upstream 1703   true Chr2: 17862254-17863956
AT2G42940 0.5kb upstream 0.5kb upstream 500   false Chr2: 17863457-17863956
AT2G42940 0.5kb downstream 0.5kb downstream 1703   true Chr2: 17861754-17863456
AT2G42940 0.5kb downstream 0.5kb downstream 500   false Chr2: 17861754-17862253
AT2G42940 1.0kb upstream 1.0kb upstream 2203   true Chr2: 17862254-17864456
AT2G42940 1.0kb upstream 1.0kb upstream 1000   false Chr2: 17863457-17864456
AT2G42940 1.0kb downstream 1.0kb downstream 2203   true Chr2: 17861254-17863456
AT2G42940 1.0kb downstream 1.0kb downstream 1000   false Chr2: 17861254-17862253
AT2G42940 3.0kb upstream 3.0kb upstream 4203   true Chr2: 17862254-17866456
AT2G42940 3.0kb upstream 3.0kb upstream 3000   false Chr2: 17863457-17866456
AT2G42940 3.0kb downstream 3.0kb downstream 4203   true Chr2: 17859254-17863456
AT2G42940 3.0kb downstream 3.0kb downstream 3000   false Chr2: 17859254-17862253

Proteins

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0 Pathways

Data Source: KEGG

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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 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
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016
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