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LOC126805641 BRD4-independent group 4 enhancer GRCh37_chr1:19446050-19447249 [ Homo sapiens (human) ]

Gene ID: 126805641, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126805641
Gene description
BRD4-independent group 4 enhancer GRCh37_chr1:19446050-19447249
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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See LOC126805641 in Genome Data Viewer
Location:
chromosome: 1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (19119556..19120755)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (18943102..18944301)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:19248832-19249412 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 283 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:19253369-19253995 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 285 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 286 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:19259223-19260210 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr1:19261862-19262407 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:19262408-19262952 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:19262953-19263498 Neighboring gene intermediate filament family orphan 2 Neighboring gene Sharpr-MPRA regulatory regions 2400 and 6542 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:19268377-19268894 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 287 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:19276675-19277594 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 289 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 290 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 291 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 292 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 348 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 347 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 349 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 293 Neighboring gene uncharacterized LOC105376815 Neighboring gene MPRA-validated peak97 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:19334779-19335422 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:19337151-19338350 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:19338425-19339336 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:19354797-19355297 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:19362307-19362878 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:19370112-19371086 Neighboring gene Sharpr-MPRA regulatory region 2200 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:19396435-19397360 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:19403898-19404066 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:19407589-19408788 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 295 Neighboring gene ubiquitin protein ligase E3 component n-recognin 4 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:19448647-19449846 Neighboring gene NANOG hESC enhancer GRCh37_chr1:19453252-19454051 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr1:19465867-19466616 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:19482517-19483716 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:19487245-19488444 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:19528831-19529332 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 350 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 296 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 297 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 351 Neighboring gene EMC1 antisense RNA 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:19562203-19562373 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:19577931-19578436 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:19580253-19580754 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:19580755-19581254 Neighboring gene ER membrane protein complex subunit 1 Neighboring gene MRT4 homolog, ribosome maturation factor

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_081965.1 

    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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    19119556..19120755
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    18943102..18944301
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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