U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    LOC126807286 BRD4-independent group 4 enhancer GRCh37_chr5:1494052-1495251 [ Homo sapiens (human) ]

    Gene ID: 126807286, updated on 12-Sep-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    LOC126807286
    Gene description
    BRD4-independent group 4 enhancer GRCh37_chr5:1494052-1495251
    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]
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See LOC126807286 in Genome Data Viewer
    Location:
    chromosome: 5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (1493937..1495136)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (1405633..1406833)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (1494052..1495251)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1511 Neighboring gene MT-CO2 pseudogene 32 Neighboring gene Sharpr-MPRA regulatory region 8068 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1386240-1386808 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr5:1404958-1406157 Neighboring gene solute carrier family 6 member 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1412675-1413175 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1414882-1415854 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1415855-1416827 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1422785-1423310 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1438947-1439628 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1446193-1446692 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr5:1455983-1457182 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1464924-1465753 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1467037-1467537 Neighboring gene lysophosphatidylcholine acyltransferase 1 Neighboring gene uncharacterized LOC124901162 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1500365-1501256 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1501257-1502147 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1502148-1503038 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1508748-1509266 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1509267-1509784 Neighboring gene Sharpr-MPRA regulatory region 9592 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1513221-1513780 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1514341-1514899 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1514900-1515460 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1515461-1516020 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1516021-1516580 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1517140-1517700 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1521598-1522102 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15882 Neighboring gene microRNA 6075 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15883 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15884 Neighboring gene CRISPRi-validated cis-regulatory element chr5.422 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:1536432-1536569 Neighboring gene uncharacterized LOC124901161

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    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

    Go to the top of the page Help

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

    Go to the top of the page Help

    See variants in ClinVar

    See Variation Viewer (GRCh37.p13)

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_083607.1 

      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_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      1493937..1495136
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_1

    Genomic

    1. NT_187547.1 Reference GRCh38.p14 ALT_REF_LOCI_1

      Range
      14637..15836 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      1405633..1406833
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases