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LOC132089602 Neanderthal introgressed variant-containing enhancer experimental_103308 [ Homo sapiens (human) ]

Gene ID: 132089602, updated on 12-Sep-2024

Summary

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Gene symbol
LOC132089602
Gene description
Neanderthal introgressed variant-containing enhancer experimental_103308
Gene type
biological region
Feature type(s)
regulatory: enhancer
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This genomic region contains a Neanderthal adaptively introgressed genetic variant, and was validated as an enhancer by massively parallel reporter assays (MPRAs) in K562 erythroleukemia cells, with activity observed for both the introgressed and non-introgressed 8:5065604 variant alleles. [provided by RefSeq, Sep 2023]
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Genomic context

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See LOC132089602 in Genome Data Viewer
Location:
chromosome: 8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (5207997..5208166)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (4961882..4962051)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (5065519..5065688)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107986907 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:4985613-4986121 Neighboring gene small nucleolar RNA SNORA70 Neighboring gene RNA, 7SL, cytoplasmic 318, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:5018868-5019368 Neighboring gene Sharpr-MPRA regulatory region 617 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:5070081-5070596 Neighboring gene Sharpr-MPRA regulatory region 1718 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:5293944-5294514 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:5311453-5312652 Neighboring gene ribosomal protein L23a pseudogene 54 Neighboring gene uncharacterized LOC105377793

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. Detection of Neanderthal Adaptively Introgressed Genetic Variants That Modulate Reporter Gene Expression in Human Immune Cells. Jagoda E, et al. Mol Biol Evol, 2022 Jan 7. PMID 34662402, Free PMC Article

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_230161.1 

    Range
    101..270
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    5207997..5208166
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    4961882..4962051
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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