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    LOC127894481 H3K27ac hESC enhancer GRCh37_chr21:27542299-27542823 [ Homo sapiens (human) ]

    Gene ID: 127894481, updated on 12-Sep-2024

    Summary

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    Gene symbol
    LOC127894481
    Gene description
    H3K27ac hESC enhancer GRCh37_chr21:27542299-27542823
    Gene type
    biological region
    Feature type(s)
    regulatory: enhancer, silencer
    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 an enhancer that was validated by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in primed human embryonic stem cells, where it is marked by the H3K27ac histone modification. This locus also includes an accessible chromatin subregion that was validated as a silencer based on its ability to repress 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 LOC127894481 in Genome Data Viewer
    Location:
    chromosome: 21
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (26169981..26171122)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (24528112..24529252)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (27542299..27543440)

    Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene amyloid beta precursor protein Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr21:27326978-27328177 Neighboring gene RNA, U6 small nuclear 123, pseudogene Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr21:27333032-27333727 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18320 Neighboring gene H3K27ac hESC enhancer GRCh37_chr21:27360167-27360668 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr21:27369694-27370507 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:27370508-27371320 Neighboring gene H3K27ac hESC enhancer GRCh37_chr21:27395669-27396168 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:27451148-27451673 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr21:27452711-27453576 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr21:27453577-27454444 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr21:27454445-27455310 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:27456082-27456619 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr21:27479739-27480384 Neighboring gene uncharacterized LOC124900466 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr21:27511930-27513129 Neighboring gene NANOG hESC enhancer GRCh37_chr21:27521254-27521823 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18321 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13235 Neighboring gene APP divergent transcript Neighboring gene RNA, U6 small nuclear 926, pseudogene Neighboring gene myristoylated alanine rich protein kinase C substrate pseudogene 1

    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. 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
    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 Variation Viewer (GRCh37.p13)

    General gene information

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    Other Names

    • ATAC-STARR-seq lymphoblastoid silent region 13236

    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_144137.2 

      Range
      101..1242
      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_000021.9 Reference GRCh38.p14 Primary Assembly

      Range
      26169981..26171122
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      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060945.1 Alternate T2T-CHM13v2.0

      Range
      24528112..24529252
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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