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LOC126805613 BRD4-independent group 4 enhancer GRCh37_chr1:10002582-10003781 [ Homo sapiens (human) ]

Gene ID: 126805613, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126805613
Gene description
BRD4-independent group 4 enhancer GRCh37_chr1:10002582-10003781
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 includes enhancers that were validated by the STARR-seq (self-transcribing active regulatory region sequencing) massively parallel reporter assay. The major subregion has activity in HCT116 colorectal carcinoma cells, where it was defined as a group 4 enhancer that depends on the BRD2, P300/CBP, MED14 and CDK7 cofactors, but it has limited or no dependence on the BRD4 bromodomain protein. Two subregions marked by the H3K27ac histone modification were also shown to be active enhancers by ChIP-STARR-seq in primed human embryonic stem cells. [provided by RefSeq, Oct 2022]
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Genomic context

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Location:
chromosome: 1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (9942420..9943723)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (9485325..9486628)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376717 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:9911316-9912116 Neighboring gene catenin beta interacting protein 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:9919701-9920595 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:9931412-9932340 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:9932341-9933268 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 236 Neighboring gene uncharacterized LOC124903838 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 140 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:9943986-9944775 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:9946851-9947439 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:9960261-9960762 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 238 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 239 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 237 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:9970922-9971595 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:9971596-9972268 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:9987872-9988381 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:9990871-9991370 Neighboring gene leucine zipper and CTNNBIP1 domain containing Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:9998882-9999382 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:9999383-9999883 Neighboring gene RN7SK pseudogene 269 Neighboring gene nicotinamide nucleotide adenylyltransferase 1 Neighboring gene transmembrane protein 274, pseudogene

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. Differential cofactor dependencies define distinct types of human enhancers. Neumayr C, et al. Nature, 2022 Jun. PMID 35650434, Free PMC Article
  2. Functional Dissection of the Enhancer Repertoire in Human Embryonic Stem Cells. Barakat TS, et al. Cell Stem Cell, 2018 Aug 2. PMID 30033119, 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

General gene information

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Other Names

  • H3K27ac hESC enhancer GRCh37_chr1:10002478-10003048
  • H3K27ac hESC enhancer GRCh37_chr1:10003049-10003618

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_081937.2 

    Range
    101..1404
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    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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    9942420..9943723
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    9485325..9486628
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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