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    Rlim ring finger protein, LIM domain interacting [ Mus musculus (house mouse) ]

    Gene ID: 19820, updated on 26-Sep-2022

    Summary

    Official Symbol
    Rlimprovided by MGI
    Official Full Name
    ring finger protein, LIM domain interactingprovided by MGI
    Primary source
    MGI:MGI:1342291
    See related
    Ensembl:ENSMUSG00000056537 AllianceGenome:MGI:1342291
    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
    Ha1r; Rlim1; Rnf12
    Summary
    Enables ubiquitin protein ligase activity. Involved in protein ubiquitination; random inactivation of X chromosome; and ubiquitin-dependent protein catabolic process. Acts upstream of or within negative regulation of DNA-binding transcription factor activity; negative regulation of transcription by RNA polymerase II; and regulation of dosage compensation by inactivation of X chromosome. Located in nucleus. Is expressed in several structures, including extraembryonic component; limb; liver; male reproductive system; and urinary system. Human ortholog(s) of this gene implicated in Tonne-Kalscheuer syndrome. Orthologous to human RLIM (ring finger protein, LIM domain interacting). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in placenta adult (RPKM 25.8), CNS E11.5 (RPKM 7.6) and 20 other tissues See more
    Orthologs
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    Genomic context

    See Rlim in Genome Data Viewer
    Location:
    X 46.42 cM; X D
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) X NC_000086.8 (103000769..103024905, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (103957163..103981296, complement)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene ribosomal protein S2 pseudogene Neighboring gene predicted gene, 23378 Neighboring gene predicted gene, 22266

    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)
    • Gene trapped (1) 
    • Targeted (2)  1 citation
    • Endonuclease-mediated (4) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    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
    PubMed 
    enables ubiquitin protein ligase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables ubiquitin-protein transferase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase RLIM
    Names
    Hoxa1 regulated
    LIM domain-interacting RING finger protein
    RING finger LIM domain-binding protein
    RING-type E3 ubiquitin transferase RLIM
    ring finger protein 12
    NP_001345134.1
    NP_035406.3
    XP_006527981.1
    XP_006527983.1
    XP_006527984.1
    XP_011245853.1
    XP_011245854.1
    XP_030107129.1

    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_001358205.1NP_001345134.1  E3 ubiquitin-protein ligase RLIM

      Status: VALIDATED

      Source sequence(s)
      AK013207, AL805911
      Consensus CDS
      CCDS30331.1
      UniProtKB/Swiss-Prot
      Q9CYY2
      Related
      ENSMUSP00000070662.5, ENSMUST00000070705.6
      Conserved Domains (1) summary
      cl17238
      Location:544588
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    2. NM_011276.4NP_035406.3  E3 ubiquitin-protein ligase RLIM

      See identical proteins and their annotated locations for NP_035406.3

      Status: VALIDATED

      Source sequence(s)
      AK013207, AK029295, AK052543, AU043143, BB024661, BY321640, BY713511, CB237411, CF163533
      Consensus CDS
      CCDS30331.1
      UniProtKB/Swiss-Prot
      Q9CYY2, Q9WTV7
      Related
      ENSMUSP00000112820.2, ENSMUST00000121153.8
      Conserved Domains (1) summary
      cl17238
      Location:544588
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    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_000086.8 Reference GRCm39 C57BL/6J

      Range
      103000769..103024905 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011247552.3XP_011245854.1  E3 ubiquitin-protein ligase RLIM isoform X1

      See identical proteins and their annotated locations for XP_011245854.1

      UniProtKB/Swiss-Prot
      Q9CYY2, Q9WTV7
      Conserved Domains (1) summary
      cl17238
      Location:544588
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    2. XM_011247551.3XP_011245853.1  E3 ubiquitin-protein ligase RLIM isoform X1

      See identical proteins and their annotated locations for XP_011245853.1

      UniProtKB/Swiss-Prot
      Q9CYY2, Q9WTV7
      Conserved Domains (1) summary
      cl17238
      Location:544588
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    3. XM_030251269.2XP_030107129.1  E3 ubiquitin-protein ligase RLIM isoform X1

      UniProtKB/Swiss-Prot
      Q9CYY2
      Conserved Domains (1) summary
      cl17238
      Location:544588
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    4. XM_006527918.5XP_006527981.1  E3 ubiquitin-protein ligase RLIM isoform X1

      See identical proteins and their annotated locations for XP_006527981.1

      UniProtKB/Swiss-Prot
      Q9CYY2, Q9WTV7
      Conserved Domains (1) summary
      cl17238
      Location:544588
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    5. XM_006527921.5XP_006527984.1  E3 ubiquitin-protein ligase RLIM isoform X1

      See identical proteins and their annotated locations for XP_006527984.1

      UniProtKB/Swiss-Prot
      Q9CYY2, Q9WTV7
      Conserved Domains (1) summary
      cl17238
      Location:544588
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    6. XM_006527920.4XP_006527983.1  E3 ubiquitin-protein ligase RLIM isoform X1

      See identical proteins and their annotated locations for XP_006527983.1

      UniProtKB/Swiss-Prot
      Q9CYY2, Q9WTV7
      Conserved Domains (1) summary
      cl17238
      Location:544588
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain