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RNF4 ring finger protein 4 [ Homo sapiens (human) ]

Gene ID: 6047, updated on 9-May-2021

Summary

Official Symbol
RNF4provided by HGNC
Official Full Name
ring finger protein 4provided by HGNC
Primary source
HGNC:HGNC:10067
See related
Ensembl:ENSG00000063978 MIM:602850
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
SLX5; SNURF; RES4-26
Summary
The protein encoded by this gene contains a RING finger motif and acts as a transcription regulator. This protein has been shown to interact with, and inhibit the activity of, TRPS1, a transcription suppressor of GATA-mediated transcription. Transcription repressor ZNF278/PATZ is found to interact with this protein, and thus reduce the enhancement of androgen receptor-dependent transcription mediated by this protein. Studies of the mouse and rat counterparts suggested a role of this protein in spermatogenesis. A pseudogene of this gene is found on chromosome 1.[provided by RefSeq, Jul 2010]
Expression
Ubiquitous expression in lymph node (RPKM 20.6), testis (RPKM 19.4) and 25 other tissues See more
Orthologs
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Genomic context

See RNF4 in Genome Data Viewer
Location:
4p16.3
Exon count:
10
Annotation release Status Assembly Chr Location
109.20210226 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (2469106..2515857)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (2470833..2517584)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene cilia and flagella associated protein 99 Neighboring gene uncharacterized LOC105374353 Neighboring gene uncharacterized LOC107986250 Neighboring gene family with sequence similarity 193 member A Neighboring gene TNFAIP3 interacting protein 2

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 Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables SUMO polymer binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables nuclear receptor coactivator activity TAS
Traceable Author Statement
more info
PubMed 
enables nucleosome binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transcription factor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables ubiquitin-protein transferase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of transcription, DNA-templated ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in protein K11-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein K48-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein K6-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein K63-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein autoubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of kinetochore assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of spindle assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in response to arsenic-containing substance IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
colocalizes_with PML body IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
colocalizes_with PML body IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in microtubule end IDA
Inferred from Direct Assay
more info
 
located_in nuclear body IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
E3 ubiquitin-protein ligase RNF4
Names
E3 ubiquitin ligase RNF4
RING-type E3 ubiquitin transferase RNF4
small nuclear RING finger protein
NP_001171938.1
NP_001171939.1
NP_002929.1

NCBI Reference Sequences (RefSeq)

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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_001185009.3NP_001171938.1  E3 ubiquitin-protein ligase RNF4 isoform 1

    See identical proteins and their annotated locations for NP_001171938.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Both variants 1 and 2 encode the same isoform (2).
    Source sequence(s)
    AB000468, BC031935, BX322586, DB064628, U95140
    Consensus CDS
    CCDS47001.1
    UniProtKB/Swiss-Prot
    P78317
    Related
    ENSP00000424076.1, ENST00000506706.5
    Conserved Domains (1) summary
    cd16533
    Location:127180
    RING-HC_RNF4; RING finger, HC subclass, found in RING finger protein 4 (RNF4) and similar proteins
  2. NM_001185010.3NP_001171939.1  E3 ubiquitin-protein ligase RNF4 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and lacks an alternate exon in the 3' coding region which results in a frameshift, compared to variant 1. The resulting protein (isoform 2) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AB000468, AK309509, BX322586, DA342512, U95140
    Consensus CDS
    CCDS54713.1
    UniProtKB/Swiss-Prot
    P78317
    Related
    ENSP00000446369.2, ENST00000541204.5
  3. NM_002938.5NP_002929.1  E3 ubiquitin-protein ligase RNF4 isoform 1

    See identical proteins and their annotated locations for NP_002929.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same isoform (2).
    Source sequence(s)
    AB000468, BX322586, DA342512, U95140
    Consensus CDS
    CCDS47001.1
    UniProtKB/Swiss-Prot
    P78317
    Related
    ENSP00000315212.8, ENST00000314289.13
    Conserved Domains (1) summary
    cd16533
    Location:127180
    RING-HC_RNF4; RING finger, HC subclass, found in RING finger protein 4 (RNF4) and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210226

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    2469106..2515857
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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