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Gene : CHC1 A. thaliana

Gene ID  ? AT5G14170
Brief Description  SWIB/MDM2 domain superfamily protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? CHC1; CONTAINS InterPro DOMAIN/s: SWIB/MDM2 domain (InterPro:IPR003121); BEST Arabidopsis thaliana protein match is: SWIB/MDM2 domain superfamily protein (TAIR:AT3G01890.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? CHC1 is predicted to encode a protein that belongs to the chromodomain remodeling complex. Two RNAi knock-down lines have a dwarf phenotype and reduced rates of Agrobacterium-mediated transformation. The low rate of root-mediated transformation rate may result from altered root morphology or reduced root growth rates. Also named as SWP73B, a subunit of the SWI/SNF chromatin remodeling complex. Acts as important modulator of major developmental pathways.  Source: TAIR, Jun 30, 2015.

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1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
BAF60 creates a repressive chromatin configuration at the FLC locus.[BAF60] 24510722

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
AT5G14170 0.5kb upstream 0.5kb upstream 3015   true Chr5: 4568480-4571494
AT5G14170 0.5kb upstream 0.5kb upstream 500   false Chr5: 4570995-4571494
AT5G14170 0.5kb downstream 0.5kb downstream 3015   true Chr5: 4567980-4570994
AT5G14170 0.5kb downstream 0.5kb downstream 500   false Chr5: 4567980-4568479
AT5G14170 1.0kb upstream 1.0kb upstream 3515   true Chr5: 4568480-4571994
AT5G14170 1.0kb upstream 1.0kb upstream 1000   false Chr5: 4570995-4571994
AT5G14170 1.0kb downstream 1.0kb downstream 3515   true Chr5: 4567480-4570994
AT5G14170 1.0kb downstream 1.0kb downstream 1000   false Chr5: 4567480-4568479
AT5G14170 3.0kb upstream 3.0kb upstream 5515   true Chr5: 4568480-4573994
AT5G14170 3.0kb upstream 3.0kb upstream 3000   false Chr5: 4570995-4573994
AT5G14170 3.0kb downstream 3.0kb downstream 5515   true Chr5: 4565480-4570994
AT5G14170 3.0kb downstream 3.0kb downstream 3000   false Chr5: 4565480-4568479

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0 Pathways

Data Source: KEGG

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Expression

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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 TAIR GO annotations assigned by TAIR 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