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LOC130000365 ATAC-STARR-seq lymphoblastoid active region 27347 [ Homo sapiens (human) ]

Gene ID: 130000365, updated on 12-Sep-2024

Summary

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Gene symbol
LOC130000365
Gene description
ATAC-STARR-seq lymphoblastoid active region 27347
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 LOC130000365 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 (52714620..52714929)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (53090614..53090923)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (53627180..53627489)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene MED14-independent group 3 enhancer GRCh37_chr8:53458378-53459577 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:53476246-53477222 Neighboring gene ALK and LTK ligand 1 Neighboring gene MPRA-validated peak7018 silencer Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr8:53512288-53512788 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr8:53541841-53542555 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr8:53566637-53567138 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr8:53567139-53567638 Neighboring gene RB1 inducible coiled-coil 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19188 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19189 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19190 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19191 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27348 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:53650644-53651144 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:53651145-53651645 Neighboring gene uncharacterized LOC105375835 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr8:53676283-53677482 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27349 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:53764919-53765152 Neighboring gene uncharacterized LOC107986943

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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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_179811.1 

    Range
    101..410
    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
    52714620..52714929
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    53090614..53090923
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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