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    Herc6 HECT and RLD domain containing E3 ubiquitin protein ligase family member 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362376, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Herc6provided by RGD
    Official Full Name
    HECT and RLD domain containing E3 ubiquitin protein ligase family member 6provided by RGD
    Primary source
    RGD:1561739
    See related
    EnsemblRapid:ENSRNOG00000023969 AllianceGenome:RGD:1561739
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in protein ubiquitination and ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within hematopoietic progenitor cell differentiation and response to bacterium. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in cytoplasm. Orthologous to human HERC6 (HECT and RLD domain containing E3 ubiquitin protein ligase family member 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 160.1), Spleen (RPKM 121.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Herc6 in Genome Data Viewer
    Location:
    4q24
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (88854612..88897043, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (87524470..87566895, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (88606851..88649424, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene LanC like glutathione S-transferase 2 Neighboring gene PIGY upstream open reading frame Neighboring gene ribosomal protein S7, pseudogene 20 Neighboring gene protein phosphatase, Mg2+/Mn2+ dependent, 1K

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Maturation of human dendritic cells is accompanied by functional remodelling of the ubiquitin-proteasome system. Ebstein F, et al. Int J Biochem Cell Biol, 2009 May. PMID 19028597
    2. Haploinsufficiency of SAMD9L, an endosome fusion facilitator, causes myeloid malignancies in mice mimicking human diseases with monosomy 7. Nagamachi A, et al. Cancer Cell, 2013 Sep 9. PMID 24029230
    3. Impact of lactobacilli on orally acquired listeriosis. Archambaud C, et al. Proc Natl Acad Sci U S A, 2012 Oct 9. PMID 23012479, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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 RGD

    Function Evidence Code Pubs
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within hematopoietic progenitor cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within response to bacterium ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    probable E3 ubiquitin-protein ligase HERC6
    Names
    hect domain and RLD 6
    potential ubiquitin ligase
    NP_001012492.1
    XP_038964615.1
    XP_038964617.1

    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_001012474.1 → NP_001012492.1  probable E3 ubiquitin-protein ligase HERC6

      Status: VALIDATED

      Source sequence(s)
      BC085921, JAXUCZ010000004
      UniProtKB/TrEMBL
      Q5U2P8
      Related
      ENSRNOP00000055422.6, ENSRNOT00000058626.6
      Conserved Domains (2) summary
      COG5184
      Location:20 → 356
      ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
      cd00078
      Location:682 → 1023
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      88854612..88897043 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039108687.2 → XP_038964615.1  probable E3 ubiquitin-protein ligase HERC6 isoform X1

      Conserved Domains (1) summary
      cd00078
      Location:314 → 655
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...

    2. XM_039108689.2 → XP_038964617.1  probable E3 ubiquitin-protein ligase HERC6 isoform X2

      Conserved Domains (1) summary
      cd00078
      Location:197 → 538
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...

    RNA

    1. XR_005503613.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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    Chemical Information
    Molecular Biology Databases
    Research Materials