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LOC126861857 BRD4-independent group 4 enhancer GRCh37_chr13:110971991-110973190 [ Homo sapiens (human) ]

Gene ID: 126861857, updated on 12-Sep-2024

Summary

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Gene symbol
LOC126861857
Gene description
BRD4-independent group 4 enhancer GRCh37_chr13:110971991-110973190
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. This sequence was defined as a group 4 enhancer that depends on the BRD2, P300/CBP, MED14 and CDK7 cofactors in HCT116 colorectal carcinoma cells, but it has limited or no dependence on the BRD4 bromodomain protein. Two subregions marked by the H3K27ac and H3K4me1 histone modifications were also shown to be active enhancers by ChIP-STARR-seq in primed human embryonic stem cells. [provided by RefSeq, Nov 2022]
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Genomic context

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See LOC126861857 in Genome Data Viewer
Location:
chromosome: 13
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (110319644..110320843)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (109548834..109550033)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (110971991..110973190)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101927712 Neighboring gene uncharacterized LOC124903272 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:110788698-110789312 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:110789313-110789927 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5500 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr13:110806879-110807510 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr13:110807511-110808142 Neighboring gene collagen type IV alpha 1 chain Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:110846747-110847946 Neighboring gene uncharacterized LOC124903212 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:110935768-110936268 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:110959260-110960093 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:110960094-110960926 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:110979365-110980133 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:110990505-110991006 Neighboring gene collagen type IV alpha 2 chain Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5501 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr13:110994550-110995499 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:110995500-110996448 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:110999397-111000255 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:111005255-111005767 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:111012706-111013206 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:111013207-111013707 Neighboring gene microRNA 8073 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:111031805-111032755 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:111039396-111040260 Neighboring gene Sharpr-MPRA regulatory region 13414 Neighboring gene small nucleolar RNA U13

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

  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:110972057-110972588
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:110972589-110973118

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_086355.1 

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

    Range
    110319644..110320843
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    109548834..109550033
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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