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    ERVK13-1 endogenous retrovirus group K13 member 1 [ Homo sapiens (human) ]

    Gene ID: 100507321, updated on 4-Dec-2023

    Summary

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    Official Symbol
    ERVK13-1provided by HGNC
    Official Full Name
    endogenous retrovirus group K13 member 1provided by HGNC
    Primary source
    HGNC:HGNC:27548
    See related
    AllianceGenome:HGNC:27548
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    Predicted to enable structural molecule activity. Predicted to be located in plasma membrane. Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in thyroid (RPKM 2.5), testis (RPKM 2.4) and 25 other tissues See more
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    Genomic context

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    See ERVK13-1 in Genome Data Viewer
    Location:
    16p13.3
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (2658389..2673439, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (2678590..2693644, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (2708390..2723440, complement)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10275 Neighboring gene potassium channel tetramerization domain containing 5 pseudogene Neighboring gene 3-phosphoinositide dependent protein kinase 2, pseudogene Neighboring gene uncharacterized LOC645644 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:2703658-2704648 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:2719877-2720093 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7063 Neighboring gene uncharacterized LOC124903627 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7064 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7065 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:2732882-2733492 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10278 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10279 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:2738809-2739397 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:2742501-2743319 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:2743320-2744137 Neighboring gene potassium channel tetramerization domain containing 5 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7066 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7067 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7068 Neighboring gene serine protease 27

    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
    • 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. Long non-coding RNA ERVK13-1 aggravates osteosarcoma through the involvement of microRNA-873-5p/KLF5 axis. Xie H, et al. Acta Biochim Pol, 2022 Oct 22. PMID 36272150
    2. Syncytins expressed in human placental trophoblast. Roberts RM, et al. Placenta, 2021 Sep 15. PMID 33504453, Free PMC Article
    3. Why do cellular proteins linked to K63-polyubiquitin chains not associate with proteasomes? Nathan JA, et al. EMBO J, 2013 Feb 20. PMID 23314748, Free PMC Article
    4. Cell cycle-dependent phosphorylation regulates RECQL4 pathway choice and ubiquitination in DNA double-strand break repair. Lu H, et al. Nat Commun, 2017 Dec 11. PMID 29229926, Free PMC Article
    5. Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei. Fasci D, et al. Mol Cell Proteomics, 2018 Oct. PMID 30021884, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. ERVK13-1/miR-873-5p/GNMT Axis Promotes Metastatic Potential in Human Bladder Cancer though Sarcosine Production.
      Title: ERVK13-1/miR-873-5p/GNMT Axis Promotes Metastatic Potential in Human Bladder Cancer though Sarcosine Production.
    2. Long non-coding RNA ERVK13-1 aggravates osteosarcoma through the involvement of microRNA-873-5p/KLF5 axis.
      Title: Long non-coding RNA ERVK13-1 aggravates osteosarcoma through the involvement of microRNA-873-5p/KLF5 axis.
    Submit: New GeneRIF Correction

    Phenotypes

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    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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    Markers

    Other Names

    • HERV-K_16p3.3 provirus ancestral Env polyprotein

    Clone Names

    • FLJ16727, FLJ20393, FLJ34475, FLJ38121, FLJ39695, FLJ40590

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables structural molecule activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    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.

    RNA

    1. NR_040023.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC092117, AC141586

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      2658389..2673439 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      2678590..2693644 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001012731.1: Suppressed sequence

      Description
      NM_001012731.1: This RefSeq was permanently suppressed because it is based on sequence from an endogenous retrovirus.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9NX77.2 GenPept UniProtKB/Swiss-Prot:Q9NX77

    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