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LOC130000922 ATAC-STARR-seq lymphoblastoid active region 27771 [ Homo sapiens (human) ]

Gene ID: 130000922, updated on 12-Sep-2024

Summary

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Gene symbol
LOC130000922
Gene description
ATAC-STARR-seq lymphoblastoid active region 27771
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 LOC130000922 in Genome Data Viewer
Location:
chromosome: 8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (102738561..102738610)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (103866781..103866830)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (103750789..103750838)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101927245 Neighboring gene uncharacterized LOC105375685 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:103700001-103700501 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr8:103700723-103701233 Neighboring gene acireductone dioxygenase 1 pseudogene 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:103742478-103743190 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:103757245-103757757 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:103757758-103758269 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:103760121-103761078 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27772 Neighboring gene uncharacterized LOC124901999 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:103789111-103789615 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:103793799-103794298 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:103794977-103795477 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27773 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:103801212-103802107 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:103804910-103805114 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:103807313-103807823 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27777 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19445 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:103820470-103821096 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19446 Neighboring gene growth arrest associated lncRNA 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_180368.1 

    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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    102738561..102738610
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    103866781..103866830
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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