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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