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Gene : SKB1 A. thaliana

Gene ID  ? AT4G31120
Brief Description  SHK1 binding protein 1  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? SHK1 binding protein 1 (SKB1); FUNCTIONS IN: protein methyltransferase activity; INVOLVED IN: positive regulation of vernalization response, regulation of flower development; LOCATED IN: cytoplasm; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Skb1 methyltransferase (InterPro:IPR007857).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Involved in vernalization. Required for epigenetic silencing of FLC, and for vernalization-mediated histone modification.  Source: TAIR, Jun 30, 2015.
Name  ? SHK1 binding protein 1
  • synonyms:
  • PRMT5,
  • calcium underaccumulation 1,
  • CAU1,
  • ATPRMT5,
  • PROTEIN ARGININE METHYLTRANSFERASE 5

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9 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
SKB1-mediated H4R3sme2 is a novel histone mark required for repression of FLC expression and flowering time control. 17363895
involved in promotion of vegetative growth and FlOWERING LOCUS C-dependent flowering time regulation 17573539
AtPRMT5 deficiency causes splicing defects in hundreds of genes involved in multiple biological processes. The splicing defects are identified in transcripts of several RNA processing factors involved in regulating flowering time. 20956294
key role for PRMT5 in the regulation of alternative splicing 20962777
period lengthening associated with mutational disruption of prmt5 indicates that Rsme2 is a decoration important for the Arabidopsis clock 21097700
SKB1 methylates the U6 snRNP LSM4 in response to salt stress and ABA. Loss of SKB1 influences pre-mRNA splicing. 21258002
Studies indicate that protein arginine methyltransferase 5 (PRMT5) plays a role in circadian clocks regulated alternative splicing process. 21941124
A mutation in CAU1 significantly increased the expression level of the calcium signaling gene CAS, and functional disruption of CAS abolished the enhanced drought tolerance and stomatal [Ca(2+)]o signaling in cau1. 23943859
SKB1 and SKB1-mediated H4R3sme2 are required for the maintenance of SAM in Arabidopsis seedlings. 24349476

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
AT4G31120 0.5kb upstream 0.5kb upstream 5186   true Chr4: 15132011-15137196
AT4G31120 0.5kb upstream 0.5kb upstream 500   false Chr4: 15136697-15137196
AT4G31120 0.5kb downstream 0.5kb downstream 5186   true Chr4: 15131511-15136696
AT4G31120 0.5kb downstream 0.5kb downstream 500   false Chr4: 15131511-15132010
AT4G31120 1.0kb upstream 1.0kb upstream 5686   true Chr4: 15132011-15137696
AT4G31120 1.0kb upstream 1.0kb upstream 1000   false Chr4: 15136697-15137696
AT4G31120 1.0kb downstream 1.0kb downstream 5686   true Chr4: 15131011-15136696
AT4G31120 1.0kb downstream 1.0kb downstream 1000   false Chr4: 15131011-15132010
AT4G31120 3.0kb upstream 3.0kb upstream 7686   true Chr4: 15132011-15139696
AT4G31120 3.0kb upstream 3.0kb upstream 3000   false Chr4: 15136697-15139696
AT4G31120 3.0kb downstream 3.0kb downstream 7686   true Chr4: 15129011-15136696
AT4G31120 3.0kb downstream 3.0kb downstream 3000   false Chr4: 15129011-15132010

Proteins

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1 Pathways

Data Source: KEGG

Identifier Name
03013 RNA transport

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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