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LOC126861877 BRD4-independent group 4 enhancer GRCh37_chr13:114878884-114880083 [ Homo sapiens (human) ]

Gene ID: 126861877, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126861877
Gene description
BRD4-independent group 4 enhancer GRCh37_chr13:114878884-114880083
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 was validated as an active enhancer by the STARR-seq (self-transcribing active regulatory region sequencing) massively parallel reporter assay in HCT116 colorectal carcinoma cells. This sequence 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. [provided by RefSeq, Sep 2022]
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Genomic context

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Location:
chromosome: 13
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (114113409..114114608)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (113320678..113322693)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8045 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:114638965-114639466 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:114639467-114639966 Neighboring gene chromosome 13 open reading frame 46 Neighboring gene SWI/SNF complex interacting GAS6 enhancer non-coding RNA Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:114748299-114748799 Neighboring gene RAS p21 protein activator 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:114789740-114790579 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:114796667-114797608 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:114801666-114802865 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:114804717-114805611 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8046 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8047 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:114812769-114813560 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:114813561-114814350 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:114829337-114829856 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8048 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8049 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5554 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8050 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8051 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5555 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8052 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8053 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8054 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:114838566-114839765 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr13:114848666-114849865 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr13:114852049-114853248 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:114875547-114876182 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:114876854-114877008 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr13:114878083-114878678 Neighboring gene RASA3 intronic transcript 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:114880307-114881171 Neighboring gene uncharacterized LOC124903221 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:114882210-114883162 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:114883163-114884114 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:114884948-114885289 Neighboring gene uncharacterized LOC107987192 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:114892696-114893197 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:114895306-114895935 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8055

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

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

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_086375.1 

    Range
    101..1300
    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_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    114113409..114114608
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_011332698.1 Reference GRCh38.p14 PATCHES

    Range
    172500..173699
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    113320678..113322693
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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