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    rlim ring finger protein, LIM domain interacting [ Danio rerio (zebrafish) ]

    Gene ID: 562487, updated on 9-Dec-2024

    Summary

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    Official Symbol
    rlimprovided by ZNC
    Official Full Name
    ring finger protein, LIM domain interactingprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-120809-2
    See related
    Ensembl:ENSDARG00000079306 AllianceGenome:ZFIN:ZDB-GENE-120809-2
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Summary
    Predicted to enable metal ion binding activity and transferase activity. Acts upstream of or within regulation of transforming growth factor beta receptor signaling pathway. Predicted to be located in nucleus. Is expressed in mesoderm. 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, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See rlim in Genome Data Viewer
    Location:
    chromosome: 14
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 14 NC_007125.7 (11289864..11302378)
    105 previous assembly GRCz10 (GCF_000002035.5) 14 NC_007125.6 (10983837..10996434)

    Chromosome 14 - NC_007125.7Genomic Context describing neighboring genes Neighboring gene ATP-binding cassette, sub-family B (MDR/TAP), member 7 Neighboring gene neurite extension and migration factor b Neighboring gene MAP7 domain-containing protein 1-like Neighboring gene MAP7 domain-containing protein 1-like

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Pathogenic variants in E3 ubiquitin ligase RLIM/RNF12 lead to a syndromic X-linked intellectual disability and behavior disorder. Frints SGM, et al. Mol Psychiatry, 2019 Nov. PMID 29728705
    2. RNF12 is regulated by AKT phosphorylation and promotes TGF-β driven breast cancer metastasis. Huang Y, et al. Cell Death Dis, 2022 Jan 10. PMID 35013159, Free PMC Article
    3. RNF12 controls embryonic stem cell fate and morphogenesis in zebrafish embryos by targeting Smad7 for degradation. Zhang L, et al. Mol Cell, 2012 Jun 8. PMID 22560923
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of transforming growth factor beta receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase RLIM
    Names
    rnf12

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007125.7 Reference GRCz11 Primary Assembly

      Range
      11289864..11302378
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_680935.10 → XP_686027.4  E3 ubiquitin-protein ligase RLIM

      See identical proteins and their annotated locations for XP_686027.4

      UniProtKB/TrEMBL
      A0A8M3BEZ3, E7FH41
      Related
      ENSDARP00000100039.3, ENSDART00000113567.4
      Conserved Domains (1) summary
      pfam13639
      Location:583 → 625
      zf-RING_2; Ring finger domain

    2. XM_009307767.4 → XP_009306042.1  E3 ubiquitin-protein ligase RLIM

      See identical proteins and their annotated locations for XP_009306042.1

      UniProtKB/TrEMBL
      A0A8M3BEZ3, E7FH41
      Conserved Domains (1) summary
      pfam13639
      Location:583 → 625
      zf-RING_2; Ring finger domain
    Nucleotide Protein Strain
    Heading Accession and Version

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