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    LOC130061280 ATAC-STARR-seq lymphoblastoid active region 12465 [ Homo sapiens (human) ]

    Gene ID: 130061280, updated on 12-Sep-2024

    Summary

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    Gene symbol
    LOC130061280
    Gene description
    ATAC-STARR-seq lymphoblastoid active region 12465
    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 sequence represents an accessible chromatin region 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) massively parallel reporter assay (MPRA) in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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    Genomic context

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    See LOC130061280 in Genome Data Viewer
    Location:
    chromosome: 17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (58329268..58329437)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (59197148..59197317)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (56406629..56406798)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene enhancer region in introns 7-9 of MPO Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:56355955-56356644 Neighboring gene MPO proximal enhancer and promoter region Neighboring gene myeloperoxidase Neighboring gene MPO upstream enhancer region Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:56379736-56380356 Neighboring gene Sharpr-MPRA regulatory region 10051 Neighboring gene TSPO associated protein 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:56386896-56387595 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:56389497-56390115 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8761 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8762 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8763 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:56402416-56402964 Neighboring gene TSPOAP1, SUPT4H1 and RNF43 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8764 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12463 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8765 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12464 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12466 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12467 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12468 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8766 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12469 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12470 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12471 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:56412683-56413183 Neighboring gene MIR142 host genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:56413329-56413870 Neighboring gene microRNA 142 Neighboring gene microRNA 4736

    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

    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)

    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_196470.1 

      Range
      101..270
      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_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      58329268..58329437
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      59197148..59197317
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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