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    Rnf40 ring finger protein 40 [ Mus musculus (house mouse) ]

    Gene ID: 233900, updated on 9-Aug-2021

    Summary

    Official Symbol
    Rnf40provided by MGI
    Official Full Name
    ring finger protein 40provided by MGI
    Primary source
    MGI:MGI:2142048
    See related
    Ensembl:ENSMUSG00000030816
    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
    BRE1-B; AI848422; mKIAA0661
    Expression
    Ubiquitous expression in testis adult (RPKM 29.9), thymus adult (RPKM 22.4) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Rnf40 in Genome Data Viewer
    Location:
    7; 7 F3
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (127187870..127202777)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (127588698..127603605)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 7 NC_000073.5 (134732212..134747119)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene transmembrane protein 265 Neighboring gene phosphorylase kinase, gamma 2 (testis) Neighboring gene coiled-coil domain containing 189 Neighboring gene RIKEN cDNA 1700120K04 gene Neighboring gene zinc finger protein 629

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC19037

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables mRNA 3'-UTR binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables syntaxin-1 binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ubiquitin conjugating enzyme binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ubiquitin protein ligase binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of HULC complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in axon terminus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in extrinsic component of membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in neuron projection ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of ubiquitin ligase complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase BRE1B
    Names
    RING-type E3 ubiquitin transferase BRE1B
    NP_001347812.1
    NP_758485.2
    XP_006507812.1
    XP_006507813.1

    NCBI Reference Sequences (RefSeq)

    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_001360883.1NP_001347812.1  E3 ubiquitin-protein ligase BRE1B isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC122417, BM899169
      Conserved Domains (3) summary
      cd16815
      Location:612666
      RING-HC_RNF40; RING finger, HC subclass, found in RING finger protein 40 (RNF40)
      cl25732
      Location:2608
      SMC_N; RecF/RecN/SMC N terminal domain
      cl26511
      Location:295593
      Neuromodulin_N; Gap junction protein N-terminal region
    2. NM_172281.2NP_758485.2  E3 ubiquitin-protein ligase BRE1B isoform 1

      See identical proteins and their annotated locations for NP_758485.2

      Status: VALIDATED

      Source sequence(s)
      AC122417, AK171462, BM899169
      Consensus CDS
      CCDS21871.1
      UniProtKB/Swiss-Prot
      Q3U319
      Related
      ENSMUSP00000146310.2, ENSMUST00000205694.2
      Conserved Domains (3) summary
      cd00162
      Location:947990
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      TIGR02168
      Location:200946
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam08647
      Location:754848
      BRE1; BRE1 E3 ubiquitin ligase

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000073.7 Reference GRCm39 C57BL/6J

      Range
      127187870..127202777
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006507749.4XP_006507812.1  E3 ubiquitin-protein ligase BRE1B isoform X1

      See identical proteins and their annotated locations for XP_006507812.1

      Conserved Domains (2) summary
      TIGR02168
      Location:230957
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd16815
      Location:9561010
      RING-HC_RNF40; RING finger, HC subclass, found in RING finger protein 40 (RNF40)
    2. XM_006507750.4XP_006507813.1  E3 ubiquitin-protein ligase BRE1B isoform X2

      Conserved Domains (2) summary
      TIGR02168
      Location:224951
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd16815
      Location:9501004
      RING-HC_RNF40; RING finger, HC subclass, found in RING finger protein 40 (RNF40)
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