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LOC108169207 OLIG3-TNFAIP3 interval homotypic cluster of transcription factor binding sites enhancer [ Homo sapiens (human) ]

Gene ID: 108169207, updated on 10-Oct-2023

Summary

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Gene symbol
LOC108169207
Gene description
OLIG3-TNFAIP3 interval homotypic cluster of transcription factor binding sites enhancer
Gene type
biological region
Feature type(s)
misc_feature: conserved_region
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 is located on chromosome 6 in the intergenic interval between the OLIG3 (oligodendrocyte transcription factor 3) and TNFAIP3 (TNF alpha induced protein 3) genes. It was identified as a homotypic cluster of transcription factor binding sites (HCT) based on the presence of multiple binding motifs for POU3F2 (POU class 3 homeobox 2). This HCT was validated as a functional enhancer in transgenic reporter assays in zebrafish. [provided by RefSeq, Jun 2016]
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Genomic context

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See LOC108169207 in Genome Data Viewer
Location:
6q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (137614249..137615468)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (138802758..138803977)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (137935386..137936605)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:137814441-137814940 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:137816622-137817155 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:137817156-137817688 Neighboring gene oligodendrocyte transcription factor 3 Neighboring gene Sharpr-MPRA regulatory region 8938 Neighboring gene basic transcription factor 3 like 4 pseudogene 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25141 Neighboring gene Sharpr-MPRA regulatory region 13388 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_90427 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25142 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17583 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25143 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17584 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17585 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_90442 Neighboring gene NANOG hESC enhancer GRCh37_chr6:137974082-137974598 Neighboring gene uncharacterized LOC105378018 Neighboring gene long intergenic non-protein coding RNA 3004 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr6:138002130-138003329 Neighboring gene uncharacterized LOC124901411 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_90467 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr6:138020371-138021570

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. Homotypic clusters of transcription factor binding sites are a key component of human promoters and enhancers. Gotea V, et al. Genome Res, 2010 May. PMID 20363979, 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)

General gene information

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Other Names

  • POU3F2 HCT enhancer

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_050905.1 

    Range
    101..1320
    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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    137614249..137615468
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    138802758..138803977
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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