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NUDT21 nudix hydrolase 21 [ Homo sapiens (human) ]

Gene ID: 11051, updated on 6-Jan-2019

Summary

Official Symbol
NUDT21provided by HGNC
Official Full Name
nudix hydrolase 21provided by HGNC
Primary source
HGNC:HGNC:13870
See related
Ensembl:ENSG00000167005 MIM:604978
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CPSF5; CFIM25
Summary
The protein encoded by this gene is one subunit of a cleavage factor required for 3' RNA cleavage and polyadenylation processing. The interaction of the protein with the RNA is one of the earliest steps in the assembly of the 3' end processing complex and facilitates the recruitment of other processing factors. This gene encodes the 25kD subunit of the protein complex, which is composed of four polypeptides. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in brain (RPKM 30.7), ovary (RPKM 29.1) and 25 other tissues See more
Orthologs

Genomic context

See NUDT21 in Genome Data Viewer
Location:
16q13
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 16 NC_000016.10 (56429136..56451349, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (56463048..56485261, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene G protein subunit alpha o1 Neighboring gene microRNA 3935 Neighboring gene autocrine motility factor receptor Neighboring gene 2-oxoglutarate and iron dependent oxygenase domain containing 1 Neighboring gene Bardet-Biedl syndrome 2 Neighboring gene uncharacterized LOC105371283

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify cleavage and polyadenylation specificity factor 5 (CPSF5; NUDT21), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify cleavage and polyadenylation specificity factor 5 (CPSF5; NUDT21), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify cleavage and polyadenylation specificity factor 5 (CPSF5; NUDT21), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify cleavage and polyadenylation specificity factor 5 (CPSF5; NUDT21), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Cleavage of Growing Transcript in the Termination Region, organism-specific biosystem (from REACTOME)
    Cleavage of Growing Transcript in the Termination Region, organism-specific biosystemThis section includes the cleavage of both polyadenylated and non-polyadenylated transcripts. In the former case polyadenylation has to precede transcript cleavage, while in the latter case there is ...
  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystem (from REACTOME)
    Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
  • Processing of Capped Intronless Pre-mRNA, organism-specific biosystem (from REACTOME)
    Processing of Capped Intronless Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
  • Processing of Intronless Pre-mRNAs, organism-specific biosystem (from REACTOME)
    Processing of Intronless Pre-mRNAs, organism-specific biosystemThe 3' ends of eukaryotic mRNAs are generated by posttranscriptional processing of an extended primary transcript. For almost all RNAs, 3' processing consists of two steps: The mRNA is first cleaved ...
  • RNA Polymerase II Transcription, organism-specific biosystem (from REACTOME)
    RNA Polymerase II Transcription, organism-specific biosystem
    RNA Polymerase II Transcription
  • RNA Polymerase II Transcription Termination, organism-specific biosystem (from REACTOME)
    RNA Polymerase II Transcription Termination, organism-specific biosystemThe detailed annotation of this section will be completed in the next release.
  • mRNA 3'-end processing, organism-specific biosystem (from REACTOME)
    mRNA 3'-end processing, organism-specific biosystemThe 3' ends of eukaryotic mRNAs are generated by posttranscriptional processing of an extended primary transcript. For almost all RNAs, 3'-end processing consists of two steps: (i) the mRNA is first ...
  • mRNA Processing, organism-specific biosystem (from WikiPathways)
    mRNA Processing, organism-specific biosystemThis process describes the conversion of precursor messenger RNA into mature messenger RNA (mRNA). The pre-mRNA molecule undergoes three main modifications. These modifications are 5' capping, 3' po...
  • mRNA Splicing, organism-specific biosystem (from REACTOME)
    mRNA Splicing, organism-specific biosystemThe process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, is called mRNA splicing...
  • mRNA Splicing - Major Pathway, organism-specific biosystem (from REACTOME)
    mRNA Splicing - Major Pathway, organism-specific biosystemThe splicing of pre-mRNA occurs within a large, very dynamic complex, designated the 'spliceosome'. The 50-60S spliceosomes are estimated to be 40-60 nm in diameter, and have molecular weights in the...
  • mRNA surveillance pathway, organism-specific biosystem (from KEGG)
    mRNA surveillance pathway, organism-specific biosystemThe mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go ...
  • mRNA surveillance pathway, conserved biosystem (from KEGG)
    mRNA surveillance pathway, conserved biosystemThe mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go ...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp686H1588

Gene Ontology Provided by GOA

Function Evidence Code Pubs
AU-rich element binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
AU-rich element binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA binding HDA PubMed 
contributes_to RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
chromatin binding IEA
Inferred from Electronic Annotation
more info
 
histone deacetylase binding IPI
Inferred from Physical Interaction
more info
PubMed 
hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
identical protein binding IDA
Inferred from Direct Assay
more info
PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
mRNA 3'-end processing TAS
Traceable Author Statement
more info
 
mRNA alternative polyadenylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
mRNA polyadenylation IEA
Inferred from Electronic Annotation
more info
 
mRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA processing IDA
Inferred from Direct Assay
more info
PubMed 
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
messenger ribonucleoprotein complex assembly IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of mRNA cleavage IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of mRNA polyadenylation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of pro-B cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of stem cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
posttranscriptional regulation of gene expression ISS
Inferred from Sequence or Structural Similarity
more info
 
pre-mRNA cleavage required for polyadenylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein heterotetramerization IDA
Inferred from Direct Assay
more info
PubMed 
protein tetramerization IDA
Inferred from Direct Assay
more info
PubMed 
termination of RNA polymerase II transcription TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
centrosome IDA
Inferred from Direct Assay
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
mRNA cleavage and polyadenylation specificity factor complex IDA
Inferred from Direct Assay
more info
PubMed 
mRNA cleavage factor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA cleavage factor complex IDA
Inferred from Direct Assay
more info
PubMed 
microtubule organizing center IDA
Inferred from Direct Assay
more info
 
nuclear body IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
paraspeckles IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
cleavage and polyadenylation specificity factor subunit 5
Names
CPSF 25 kDa subunit
cleavage and polyadenylation specific factor 5, 25 kD subunit
cleavage and polyadenylation specific factor 5, 25 kDa
cleavage and polyadenylation specificity factor 25 kDa subunit
cleavage factor Im complex 25 kDa subunit
nucleoside diphosphate-linked moiety X motif 21
nudix (nucleoside diphosphate linked moiety X)-type motif 21
nudix motif 21
pre-mRNA cleavage factor Im (25kD)
pre-mRNA cleavage factor Im 25 kDa subunit
pre-mRNA cleavage factor Im 68 kDa subunit
pre-mRNA cleavage factor Im, 25kD subunit

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_007006.3NP_008937.1  cleavage and polyadenylation specificity factor subunit 5

    See identical proteins and their annotated locations for NP_008937.1

    Status: REVIEWED

    Source sequence(s)
    AC092140, AL535307, BC001403
    Consensus CDS
    CCDS10760.1
    UniProtKB/Swiss-Prot
    O43809
    UniProtKB/TrEMBL
    A0A024R6W2
    Related
    ENSP00000300291.5, ENST00000300291.9
    Conserved Domains (1) summary
    pfam13869
    Location:35222
    NUDIX_2; Nucleotide hydrolase

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p12 Primary Assembly

    Range
    56429136..56451349 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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