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LOC130055638 ATAC-STARR-seq lymphoblastoid active region 8385 [ Homo sapiens (human) ]

Gene ID: 130055638, updated on 12-Sep-2024

Summary

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Gene symbol
LOC130055638
Gene description
ATAC-STARR-seq lymphoblastoid active region 8385
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 LOC130055638 in Genome Data Viewer
Location:
chromosome: 14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (51989966..51990025)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (46197010..46197069)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (52456684..52456743)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101927598 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:52242760-52242929 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8375 Neighboring gene olfactory receptor family 7 subfamily E member 159 pseudogene Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_34233 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:52282721-52283222 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8376 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8377 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8378 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8379 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8380 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8381 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5741 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:52326949-52327450 Neighboring gene G protein subunit gamma 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8383 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5742 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8384 Neighboring gene uncharacterized LOC102723604 Neighboring gene uncharacterized LOC105370497 Neighboring gene Sharpr-MPRA regulatory region 5932 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:52480482-52481434 Neighboring gene RNA transcription, translation and transport factor Neighboring gene Sharpr-MPRA regulatory region 12958 Neighboring gene nidogen 2 Neighboring gene uncharacterized LOC105378180

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_190059.1 

    Range
    101..160
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    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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    51989966..51990025
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    46197010..46197069
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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