U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC126860659 BRD4-independent group 4 enhancer GRCh37_chr9:86916903-86918102 [ Homo sapiens (human) ]

Gene ID: 126860659, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC126860659
Gene description
BRD4-independent group 4 enhancer GRCh37_chr9:86916903-86918102
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]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
chromosome: 9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (84301988..84303187)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (96452327..96453526)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101927575 Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene 33 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr9:86766071-86767007 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:86787894-86788403 Neighboring gene Sharpr-MPRA regulatory region 11289 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19983 Neighboring gene NANOG hESC enhancer GRCh37_chr9:86891619-86892170 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr9:86892303-86893502 Neighboring gene SLC28A3 regulatory antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28502 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28503 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28504 Neighboring gene solute carrier family 28 member 3 Neighboring gene SLC28A3 intron nontranscribed chromatin-defined enhancer Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:86991346-86991846 Neighboring gene uncharacterized LOC102724036 Neighboring gene uncharacterized LOC124902192 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19984 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr9:87127109-87128308 Neighboring gene NANOG hESC enhancer GRCh37_chr9:87185076-87185832 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108369 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28505 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19985 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28506 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28507 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28508 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr9:87323096-87324014 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28509 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28510 Neighboring gene neurotrophic receptor tyrosine kinase 2 Neighboring gene uncharacterized LOC124902193

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

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

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_085159.1 

    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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    84301988..84303187
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    96452327..96453526
    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