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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 2-Nov-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, Nov 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 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
    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