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    LOC129999323 ATAC-STARR-seq lymphoblastoid active region 26635 [ Homo sapiens (human) ]

    Gene ID: 129999323, updated on 12-Sep-2024

    Summary

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    Gene symbol
    LOC129999323
    Gene description
    ATAC-STARR-seq lymphoblastoid active region 26635
    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 LOC129999323 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 (129826377..129826426)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (131139677..131139726)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (129466217..129466266)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129416778-129417624 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18633 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18634 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129420163-129421008 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129421855-129422700 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129422701-129423545 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129424259-129424770 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129424771-129425281 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26633 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26634 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr7:129426816-129427326 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129427327-129427837 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129427838-129428347 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129432262-129432762 Neighboring gene microRNA 183 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129439452-129440063 Neighboring gene microRNA 96 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129442015-129442516 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129442517-129443016 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18636 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18637 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18638 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129474501-129475160 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr7:129475895-129476430 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:129478138-129479337 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129482500-129483326 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129483327-129484153 Neighboring gene ubiquitin conjugating enzyme E2 H Neighboring gene NANOG hESC enhancer GRCh37_chr7:129519616-129520117 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26636 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:129585761-129586260 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:129588587-129589160 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129589161-129589732 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26637 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18639 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18640 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:129606459-129606647 Neighboring gene UBE2H divergent transcript Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129608210-129608852 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129608853-129609494 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18641 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129630785-129631284 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129646338-129646838 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129646839-129647339 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26638 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26639 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr7:129649077-129650276 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26640 Neighboring gene zinc finger C3HC-type containing 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

    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_178769.1 

      Range
      101..150
      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
      129826377..129826426
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      131139677..131139726
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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