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LOC130056234 ATAC-STARR-seq lymphoblastoid active region 8844 [ Homo sapiens (human) ]

Gene ID: 130056234, updated on 27-Aug-2024

Summary

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Gene symbol
LOC130056234
Gene description
ATAC-STARR-seq lymphoblastoid active region 8844
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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Location:
chromosome: 14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (88824303..88824662)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (83047908..83048267)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene zinc finger CCCH-type containing 14 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:89084698-89085319 Neighboring gene EMAP like 5 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8843 Neighboring gene MPRA-validated peak2226 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5993 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5994 Neighboring gene RNA, U4 small nuclear 92, pseudogene Neighboring gene tetratricopeptide repeat domain 8 Neighboring gene tRNA-Ala (anticodon AGC) 15-1 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr14:89466718-89467917 Neighboring gene uncharacterized LOC124903356

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

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_190655.1 

    Range
    101..460
    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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    88824303..88824662
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    83047908..83048267
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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