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Gene : CYP59 A. thaliana

Gene ID  ? AT1G53720
Brief Description  cyclophilin 59  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? cyclophilin 59 (CYP59); FUNCTIONS IN: peptidyl-prolyl cis-trans isomerase activity, RNA binding, nucleic acid binding; INVOLVED IN: protein folding; LOCATED IN: nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Cyclophilin-like (InterPro:IPR015891), Peptidyl-prolyl cis-trans isomerase, cyclophilin-type (InterPro:IPR002130), RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), Zinc finger, CCHC-type (InterPro:IPR001878); BEST Arabidopsis thaliana protein match is: peptidyl-prolyl cis-trans isomerases;hydrolases;nucleoside-triphosphatases;ATP binding;nucleotide binding;ATPases (TAIR:AT1G53780.2).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Encodes a cyclophilin, member of a family modular proteins consisting of a peptidyl-prolyl cis– trans isomerase (PPIase) domain, followed by an RNA recognition motif (RRM), and a C-terminal domain enriched in charged amino acids. Interacts with with SCL33/SR33 and with a majority of Arabidopsis SR proteins and the largest subunit of RNA polymerase II. Localizes to the nucleus, but it does not significantly colocalize with SR proteins in nuclear speckles.  Source: TAIR, Jun 30, 2015.
Name  ? cyclophilin 59
  • synonyms:
  • ATCYP59,
  • CYCLOPHILIN 59

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2 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
AtCyp59 interacts with the C-terminal domain (CTD) of the largest subunit of RNA polymerase II. The data suggests a possible function of AtCyp59 in activities connecting transcription and pre-mRNA processing [AtCyp59] 16497658
The identification of an RNA-binding motif,(G[U/C]N[G/A]CC[A/G], for AtCyp59. 23248006

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
AT1G53720 0.5kb upstream 0.5kb upstream 3778   true Chr1: 20056026-20059803
AT1G53720 0.5kb upstream 0.5kb upstream 500   false Chr1: 20056026-20056525
AT1G53720 0.5kb downstream 0.5kb downstream 3778   true Chr1: 20056526-20060303
AT1G53720 0.5kb downstream 0.5kb downstream 500   false Chr1: 20059804-20060303
AT1G53720 1.0kb upstream 1.0kb upstream 4278   true Chr1: 20055526-20059803
AT1G53720 1.0kb upstream 1.0kb upstream 1000   false Chr1: 20055526-20056525
AT1G53720 1.0kb downstream 1.0kb downstream 4278   true Chr1: 20056526-20060803
AT1G53720 1.0kb downstream 1.0kb downstream 1000   false Chr1: 20059804-20060803
AT1G53720 3.0kb upstream 3.0kb upstream 6278   true Chr1: 20053526-20059803
AT1G53720 3.0kb upstream 3.0kb upstream 3000   false Chr1: 20053526-20056525
AT1G53720 3.0kb downstream 3.0kb downstream 6278   true Chr1: 20056526-20062803
AT1G53720 3.0kb downstream 3.0kb downstream 3000   false Chr1: 20059804-20062803

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 InterPro    
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