U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC132089081 Neanderthal introgressed variant-containing enhancer experimental_75989 [ Homo sapiens (human) ]

Gene ID: 132089081, updated on 27-Aug-2024

Summary

Go to the top of the page Help
Gene symbol
LOC132089081
Gene description
Neanderthal introgressed variant-containing enhancer experimental_75989
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 4:167351426 variant alleles. [provided by RefSeq, Sep 2023]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
chromosome: 4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (166430189..166430358)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (169776130..169776299)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105377521 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr4:166888016-166889215 Neighboring gene Sharpr-MPRA regulatory region 2915 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr4:166963784-166964983 Neighboring gene tolloid like 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22120 Neighboring gene RNA, 5S ribosomal pseudogene 170 Neighboring gene Sharpr-MPRA regulatory region 13283 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_75833 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_75852 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_75875 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_75970 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_76035 Neighboring gene Sharpr-MPRA regulatory region 523 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:167490745-167491404 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:167491405-167492062 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22121 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:167636733-167637577 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:167637578-167638421 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:167642620-167643500 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22122 Neighboring gene SPARC (osteonectin), cwcv and kazal like domains proteoglycan 3 Neighboring gene NANOG hESC enhancer GRCh37_chr4:167796983-167797484 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15787 Neighboring gene RNA, 5S ribosomal pseudogene 171 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22123 Neighboring gene RNA, 7SL, cytoplasmic 776, pseudogene

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the pageHelp

GeneRIFs: Gene References Into Functions

Phenotypes

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_229640.1 

    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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    166430189..166430358
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    169776130..169776299
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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

Molecular Biology Databases