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LOC126862459 BRD4-independent group 4 enhancer GRCh37_chr17:800010-801209 [ Homo sapiens (human) ]

Gene ID: 126862459, updated on 12-Sep-2024

Summary

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Gene symbol
LOC126862459
Gene description
BRD4-independent group 4 enhancer GRCh37_chr17:800010-801209
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. In HCT116 colorectal carcinoma cells, a subregion 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. Another subregion was also validated as an enhancer by ChIP-STARR-seq in primed human embryonic stem cells, where it associates with the NANOG transcription factor and is marked by the H3K27ac and H3K4me1 histone modifications. [provided by RefSeq, Jan 2023]
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Genomic context

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See LOC126862459 in Genome Data Viewer
Location:
chromosome: 17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (896770..898520)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (783019..784635)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (800010..801760)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:685572-686120 Neighboring gene Sharpr-MPRA regulatory region 8532 Neighboring gene glyoxalase domain containing 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11442 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:736782-737522 Neighboring gene mitochondrial rRNA methyltransferase 3 Neighboring gene Sharpr-MPRA regulatory region 9814 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:746053-747038 Neighboring gene uncharacterized LOC124903894 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:753668-754242 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:754898-755398 Neighboring gene nucleoredoxin Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:773909-774736 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:790499-790998 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr17:801761-802401 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:802905-803406 Neighboring gene uncharacterized LOC101927727 Neighboring gene Sharpr-MPRA regulatory region 13189 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:821769-822286 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:827635-828190 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:827078-827634 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:830369-831259 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:849438-850330 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:850331-851222 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:853008-853900 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:858382-858882 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:858973-859201 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:865783-866755 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:867917-868670 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:868671-869424 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:875671-876172 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:876173-876672 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:881929-882864 Neighboring gene Sharpr-MPRA regulatory region 9475 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:891083-891953 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:900391-901082 Neighboring gene translocase of inner mitochondrial membrane 22 Neighboring gene ABR activator of RhoGEF and GTPase

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

See Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:801119-801760

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_086957.2 

    Range
    101..1851
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    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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    896770..898520
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    783019..784635
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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