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LOC111255649 ZNF80-LTR promoter [ Homo sapiens (human) ]

Gene ID: 111255649, updated on 10-Oct-2023

Summary

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Gene symbol
LOC111255649
Gene description
ZNF80-LTR promoter
Gene type
biological region
Feature type(s)
mobile_element
regulatory: promoter
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This region represents the promoter of the zinc finger protein 80 gene. This promoter is derived from an endogenous retrovirus long terminal repeat (LTR), which inserted into this genomic region during the evolution of great apes. This sequence is an example of exaptation of retrotransposons into functional regulatory element. [provided by RefSeq, Oct 2017]
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Genomic context

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Location:
chromosome: 3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (114237141..114239397)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (116958072..116960328)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (113955988..113958244)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene dopamine receptor D3 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:113871254-113871787 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:113873145-113873654 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:113873655-113874164 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr3:113932583-113933256 Neighboring gene ATOSB pseudogene 1 Neighboring gene zinc finger protein 80 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:113993502-113994701 Neighboring gene H3K4me1 hESC enhancers GRCh37_chr3:114009187-114010130 and GRCh37_chr3:114010131-114011073 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:114017997-114018498 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:114018499-114018998 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20270 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20271 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20272 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20273 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20274 Neighboring gene uncharacterized LOC124909411 Neighboring gene T cell immunoreceptor with Ig and ITIM domains

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Characterization and genomic mapping of the ZNF80 locus: expression of this zinc-finger gene is driven by a solitary LTR of ERV9 endogenous retroviral family. Di Cristofano A, et al. Nucleic Acids Res, 1995 Aug 11. PMID 7659503, Free PMC Article
  2. Mobilization of an ERV9 human endogenous retroviral element during primate evolution. Di Cristofano A, et al. Virology, 1995 Oct 20. PMID 7483274

GeneRIFs: Gene References Into Functions

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 Variation Viewer (GRCh37.p13)

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.

Genomic

  1. NG_055596.1 

    Range
    101..2357
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    114237141..114239397
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    116958072..116960328
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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