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    NEURL3 neuralized E3 ubiquitin protein ligase 3 [ Homo sapiens (human) ]

    Gene ID: 93082, updated on 2-Nov-2024

    Summary

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    Official Symbol
    NEURL3provided by HGNC
    Official Full Name
    neuralized E3 ubiquitin protein ligase 3provided by HGNC
    Primary source
    HGNC:HGNC:25162
    See related
    Ensembl:ENSG00000163121 MIM:617206; AllianceGenome:HGNC:25162
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    LINCR; RNF132
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in ubiquitin-dependent endocytosis. Predicted to act upstream of or within protein ubiquitination. Predicted to be located in cytoplasm. Predicted to be active in early endosome. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in salivary gland (RPKM 4.9), kidney (RPKM 1.8) and 5 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See NEURL3 in Genome Data Viewer
    Location:
    2q11.2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (96497646..96508109, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (97004264..97014728, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (97163383..97173846, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:96991242-96991742 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11764 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:97000977-97001818 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:97001819-97002660 Neighboring gene ITPRIP like 1 Neighboring gene non-SMC condensin I complex subunit H Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:97087565-97088066 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr2:97093193-97094392 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr2:97128139-97128886 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11766 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97151159-97151851 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr2:97158713-97159372 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97162590-97163590 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97163591-97164590 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16218 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11767 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97190085-97190604 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11768 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11769 Neighboring gene uncharacterized LOC105373496 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16219 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97196747-97197538 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97197539-97198328 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11771 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11772 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16221 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr2:97204265-97204810 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16222 Neighboring gene AT-rich interaction domain 5A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. The E3 ligase NEURL3 suppresses epithelial-mesenchymal transition and metastasis in nasopharyngeal carcinoma by promoting vimentin degradation. Zhou SQ, et al. J Exp Clin Cancer Res, 2024 Jan 9. PMID 38191501, Free PMC Article
    2. A novel inflammation-induced ubiquitin E3 ligase in alveolar type II cells. Hu Y, et al. Biochem Biophys Res Commun, 2005 Jul 22. PMID 15936721
    3. MIND bomb 2 prevents RIPK1 kinase activity-dependent and -independent apoptosis through ubiquitylation of cFLIP(L). Nakabayashi O, et al. Commun Biol, 2021 Jan 19. PMID 33469115, Free PMC Article
    4. E3 ubiquitin ligase NEURL3 promotes innate antiviral response through catalyzing K63-linked ubiquitination of IRF7. Qi F, et al. FASEB J, 2022 Aug. PMID 35792897
    5. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The E3 ligase NEURL3 suppresses epithelial-mesenchymal transition and metastasis in nasopharyngeal carcinoma by promoting vimentin degradation.
      Title: The E3 ligase NEURL3 suppresses epithelial-mesenchymal transition and metastasis in nasopharyngeal carcinoma by promoting vimentin degradation.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables metal ion binding 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 innate immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ubiquitin-dependent endocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in early endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase NEURL3
    Names
    RING-type E3 ubiquitin transferase NEURL3
    lung-inducible neuralized-related C3CH4 RING domain protein
    neuralized homolog 3 pseudogene
    neuralized-like protein 3
    NP_001272414.1
    NP_001272415.1
    XP_011510480.1
    XP_011510481.1
    XP_047302299.1
    XP_054200551.1
    XP_054200552.1
    XP_054200553.1

    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_001285485.2 → NP_001272414.1  E3 ubiquitin-protein ligase NEURL3 isoform a

      See identical proteins and their annotated locations for NP_001272414.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shortest transcript and encodes the longer isoform (a).
      Source sequence(s)
      AC013270, CA311039, DC406186, HY288910
      Consensus CDS
      CCDS74542.1
      UniProtKB/Swiss-Prot
      Q96EH8
      Related
      ENSP00000478591.1, ENST00000451794.6
      Conserved Domains (4) summary
      smart00588
      Location:16 → 138
      NEUZ; domain in neuralized proteins
      pfam07177
      Location:20 → 85
      Neuralized; Neuralized
      pfam13920
      Location:200 → 247
      zf-C3HC4_3; Zinc finger, C3HC4 type (RING finger)
      cl02614
      Location:19 → 171
      SPRY; SPRY domain

    2. NM_001285486.2 → NP_001272415.1  E3 ubiquitin-protein ligase NEURL3 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains two alternate exons, one of which results in a frameshift, compared to variant 1. The resulting protein (isoform b) uses a downstream, in-frame AUG and has a distinct C-terminus, compared to isoform a.
      Source sequence(s)
      AL389981, DC406186
      Consensus CDS
      CCDS74541.1
      UniProtKB/TrEMBL
      A0A087WVI2
      Related
      ENSP00000479456.1, ENST00000310865.7

    RNA

    1. NR_104346.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate 5' terminal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      BC012317

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      96497646..96508109 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011512179.3 → XP_011510481.1  E3 ubiquitin-protein ligase NEURL3 isoform X1

      See identical proteins and their annotated locations for XP_011510481.1

      UniProtKB/Swiss-Prot
      Q96EH8
      Conserved Domains (4) summary
      smart00588
      Location:16 → 138
      NEUZ; domain in neuralized proteins
      pfam07177
      Location:20 → 85
      Neuralized; Neuralized
      pfam13920
      Location:200 → 247
      zf-C3HC4_3; Zinc finger, C3HC4 type (RING finger)
      cl02614
      Location:19 → 171
      SPRY; SPRY domain

    2. XM_011512178.3 → XP_011510480.1  E3 ubiquitin-protein ligase NEURL3 isoform X1

      See identical proteins and their annotated locations for XP_011510480.1

      UniProtKB/Swiss-Prot
      Q96EH8
      Conserved Domains (4) summary
      smart00588
      Location:16 → 138
      NEUZ; domain in neuralized proteins
      pfam07177
      Location:20 → 85
      Neuralized; Neuralized
      pfam13920
      Location:200 → 247
      zf-C3HC4_3; Zinc finger, C3HC4 type (RING finger)
      cl02614
      Location:19 → 171
      SPRY; SPRY domain

    3. XM_047446343.1 → XP_047302299.1  E3 ubiquitin-protein ligase NEURL3 isoform X2

      UniProtKB/TrEMBL
      A0A087WXE0
      Related
      ENSP00000480933.1, ENST00000435380.3

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      97004264..97014728 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054344577.1 → XP_054200552.1  E3 ubiquitin-protein ligase NEURL3 isoform X1

      UniProtKB/Swiss-Prot
      Q96EH8

    2. XM_054344576.1 → XP_054200551.1  E3 ubiquitin-protein ligase NEURL3 isoform X1

      UniProtKB/Swiss-Prot
      Q96EH8

    3. XM_054344578.1 → XP_054200553.1  E3 ubiquitin-protein ligase NEURL3 isoform X2

      UniProtKB/TrEMBL
      A0A087WXE0

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001080535.1: Suppressed sequence

      Description
      NM_001080535.1: This RefSeq was permanently suppressed because insufficient support for the specific combination of exons in the RefSeq record and the protein currently exists.

    2. NR_026875.1: Suppressed sequence

      Description
      NR_026875.1: This RefSeq was permanently suppressed because it is now thought that this gene does encode a protein.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q96EH8.2 GenPept UniProtKB/Swiss-Prot:Q96EH8

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials