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LOC126807041 BRD4-independent group 4 enhancer GRCh37_chr4:40674299-40675498 [ Homo sapiens (human) ]

Gene ID: 126807041, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126807041
Gene description
BRD4-independent group 4 enhancer GRCh37_chr4:40674299-40675498
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: 4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (40672282..40673481)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (40646131..40647330)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene RNA binding motif protein 47 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:40517897-40518207 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:40527595-40528394 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:40528395-40529195 Neighboring gene ribosomal protein L37 pseudogene 14 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15379 Neighboring gene microRNA 4802 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:40563453-40563953 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:40564097-40564607 Neighboring gene NANOG hESC enhancer GRCh37_chr4:40566953-40567529 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21491 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21492 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:40583996-40584174 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:40593988-40594488 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:40597457-40597958 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21493 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:40621147-40621674 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15380 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15381 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:40630738-40631614 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:40631615-40632492 Neighboring gene NANOG hESC enhancer GRCh37_chr4:40663700-40664205 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21495 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21496 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21497 Neighboring gene NANOG hESC enhancer GRCh37_chr4:40700528-40701301 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21498 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21499 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21500 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21501 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:40809683-40810183 Neighboring gene NOP2/Sun RNA methyltransferase family member 7 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:40837789-40838358 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21502 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21503 Neighboring gene NANOG hESC enhancer GRCh37_chr4:40842967-40843468 Neighboring gene ADP ribosylation factor like GTPase 4A pseudogene 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15382 Neighboring gene small nucleolar RNA U13 Neighboring gene amyloid beta precursor protein binding family B member 2

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_083362.1 

    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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    40672282..40673481
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    40646131..40647330
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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