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

Gene ID: 74132, updated on 5-Mar-2024

Summary

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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. Acts upstream of or within negative regulation of axon extension; positive regulation of transcription, DNA-templated; and ubiquitin-dependent protein catabolic process. Located in PML body; axon; and cytoplasm. Is expressed in genitourinary system. Human ortholog(s) of this gene implicated in esophageal cancer and squamous cell carcinoma. Orthologous to human RNF6 (ring finger protein 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in bladder adult (RPKM 14.8), cerebellum adult (RPKM 13.4) and 28 other tissues See more
Orthologs
human all
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: 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

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Related articles in PubMed

  1. 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
  2. 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
  3. 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
  4. Islet α-, β-, and δ-cell development is controlled by the Ldb1 coregulator, acting primarily with the islet-1 transcription factor. Hunter CS, et al. Diabetes, 2013 Mar. PMID 23193182, Free PMC Article
  5. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, et al. Science, 2004 Dec 24. PMID 15618518

See all (23) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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 protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
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 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 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 androgen receptor signaling pathway ISO
Inferred from Sequence Orthology
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 cell projection IEA
Inferred from Electronic Annotation
more info
  
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 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
  

General protein information

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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)

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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_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

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