U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Rnf6 ring finger protein (C3H2C3 type) 6 [ Mus musculus (house mouse) ]

Gene ID: 74132, updated on 2-Nov-2024

Summary

Go to the top of the page Help
Official Symbol
Rnf6provided by MGI
Official Full Name
ring finger protein (C3H2C3 type) 6provided by MGI
Primary source
MGI:MGI:1921382
See related
Ensembl:ENSMUSG00000029634 AllianceGenome:MGI:1921382
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
1200013I08Rik; 5730419H05Rik
Summary
Enables DNA binding activity and ubiquitin protein ligase activity. Involved in protein K48-linked ubiquitination and ubiquitin-dependent protein catabolic process. Acts upstream of or within negative regulation of axon extension and positive regulation of DNA-templated transcription. Located in PML body; axon; and cytoplasm. Is expressed in central nervous system and genitourinary system. Human ortholog(s) of this gene implicated in esophagus squamous cell carcinoma and squamous cell carcinoma. Orthologous to human RNF6 (ring finger protein 6). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in bladder adult (RPKM 14.8), cerebellum adult (RPKM 13.4) and 28 other tissues See more
Orthologs
human all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Rnf6 in Genome Data Viewer
Location:
5 G3; 5 85.18 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (146146003..146158267, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (146209193..146221457, complement)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1700001J03 gene Neighboring gene cytochrome P450, family 3, subfamily a, member 60, pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E4806 Neighboring gene predicted gene, 38745 Neighboring gene cyclin dependent kinase 8

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. QKI degradation in macrophage by RNF6 protects mice from MRSA infection via enhancing PI3K p110β dependent autophagy. Zhai D, et al. Cell Biosci, 2022 Sep 10. PMID 36088389, Free PMC Article
  2. Gene control in germinal differentiation: RNF6, a transcription regulatory protein in the mouse sertoli cell. Lopez P, et al. Mol Cell Biol, 2002 May. PMID 11971979, Free PMC Article
  3. Distinct gene loci control the host response to influenza H1N1 virus infection in a time-dependent manner. Nedelko T, et al. BMC Genomics, 2012 Aug 20. PMID 22905720, Free PMC Article
  4. The ubiquitin ligase Rnf6 regulates local LIM kinase 1 levels in axonal growth cones. Tursun B, et al. Genes Dev, 2005 Oct 1. PMID 16204183, Free PMC Article
  5. Accumulation of NCOA1 dependent on HERC3 deficiency transactivates matrix metallopeptidases and promotes extracellular matrix degradation in intervertebral disc degeneration. Li X, et al. Life Sci, 2023 May 1. PMID 36878279

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nuclear androgen receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear androgen receptor binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables ubiquitin-protein transferase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of axon extension IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of axon extension IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within negative regulation of axon extension IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within negative regulation of axon extension IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in protein K27-linked ubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein K27-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K48-linked ubiquitination IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in protein K6-linked ubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein K6-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein ubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of androgen receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of androgen receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in ubiquitin-dependent protein catabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in PML body IDA
Inferred from Direct Assay
more info
 PubMed 
located_in axon IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear membrane IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

Go to the top of the page Help
Preferred Names
E3 ubiquitin-protein ligase RNF6
Names
RING-type E3 ubiquitin transferase RNF6
RLIM-like protein
NP_001243014.1
NP_001243015.1
NP_001243016.1
NP_083050.1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001256085.1 → NP_001243014.1  E3 ubiquitin-protein ligase RNF6 isoform 1

    See identical proteins and their annotated locations for NP_001243014.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1-3 encode the same isoform (1).
    Source sequence(s)
    AK004745, AK150269, AV586321, BY136428
    Consensus CDS
    CCDS19868.1
    UniProtKB/Swiss-Prot
    B2RRR0, Q8K565, Q9DBU5
    Related
    ENSMUSP00000067559.4, ENSMUST00000067837.10
    Conserved Domains (1) summary
    pfam13639
    Location:614 → 655
    zf-RING_2; Ring finger domain

  2. NM_001256086.1 → NP_001243015.1  E3 ubiquitin-protein ligase RNF6 isoform 2

    See identical proteins and their annotated locations for NP_001243015.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and coding region which includes an upstream in-frame AUG start codon, compared to variant 1. The resulting isoform (2) is longer at the N-terminus, compared to isoform 1.
    Source sequence(s)
    AC113316
    Conserved Domains (1) summary
    pfam13639
    Location:625 → 666
    zf-RING_2; Ring finger domain

  3. NM_001256087.1 → NP_001243016.1  E3 ubiquitin-protein ligase RNF6 isoform 1

    See identical proteins and their annotated locations for NP_001243016.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1-3 encode the same isoform (1).
    Source sequence(s)
    AK004745, AV586321, CX237430
    Consensus CDS
    CCDS19868.1
    UniProtKB/Swiss-Prot
    B2RRR0, Q8K565, Q9DBU5
    Related
    ENSMUSP00000128774.3, ENSMUST00000169407.9
    Conserved Domains (1) summary
    pfam13639
    Location:614 → 655
    zf-RING_2; Ring finger domain

  4. NM_028774.3 → NP_083050.1  E3 ubiquitin-protein ligase RNF6 isoform 1

    See identical proteins and their annotated locations for NP_083050.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the predominant isoform (1).
    Source sequence(s)
    AK004745, AV586321, BY323318
    Consensus CDS
    CCDS19868.1
    UniProtKB/Swiss-Prot
    B2RRR0, Q8K565, Q9DBU5
    Related
    ENSMUSP00000124293.2, ENSMUST00000161859.8
    Conserved Domains (1) summary
    pfam13639
    Location:614 → 655
    zf-RING_2; Ring finger domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    146146003..146158267 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9DBU5.1 GenPept UniProtKB/Swiss-Prot:Q9DBU5

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous