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    LOC126859999 BRD4-independent group 4 enhancer GRCh37_chr7:37393979-37395178 [ Homo sapiens (human) ]

    Gene ID: 126859999, updated on 12-Sep-2024

    Summary

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    Gene symbol
    LOC126859999
    Gene description
    BRD4-independent group 4 enhancer GRCh37_chr7:37393979-37395178
    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 (MPRA) in HCT116 colorectal carcinoma cells, where it 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. This locus also includes an accessible chromatin subregion that was validated as an enhancer based on its ability to activate an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) MPRA in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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    Genomic context

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    See LOC126859999 in Genome Data Viewer
    Location:
    chromosome: 7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (37354375..37355574)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (37495087..37496285)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (37393979..37395178)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene engulfment and cell motility 1 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25852 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:37243623-37244822 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:37287752-37288372 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:37288373-37288992 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:37318405-37318906 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:37318907-37319406 Neighboring gene Sharpr-MPRA regulatory region 7000 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25853 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25854 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:37392751-37393252 Neighboring gene RNA, U6 small nuclear 565, pseudogene Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:37415805-37417004 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25858 Neighboring gene ribosomal protein S10 pseudogene 14 Neighboring gene uncharacterized LOC124900242

    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. ATAC-STARR-seq reveals transcription factor-bound activators and silencers within chromatin-accessible regions of the human genome. Hansen TJ, et al. Genome Res, 2022 Aug 25. PMID 35858748, 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

    • ATAC-STARR-seq lymphoblastoid active region 25857

    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_084500.1 

      Range
      101..1300
      Download
      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_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      37354375..37355574
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      37495087..37496285
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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