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LOC130056361 ATAC-STARR-seq lymphoblastoid active region 8949 [ Homo sapiens (human) ]

Gene ID: 130056361, updated on 27-Aug-2024

Summary

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Gene symbol
LOC130056361
Gene description
ATAC-STARR-seq lymphoblastoid active region 8949
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 (95211986..95212035)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (89442201..89442250)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene dicer 1, ribonuclease III Neighboring gene microRNA 3173 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6041 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6042 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8947 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8948 Neighboring gene DICER1 antisense RNA 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:95662653-95662819 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:95665195-95666123 Neighboring gene calmin Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8950 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:95719574-95720500 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:95720501-95721426 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:95721427-95722352 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:95725084-95725755 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:95725756-95726426 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:95727628-95728254 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr14:95731514-95732713 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:95769323-95769824 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6044 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8954 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8955 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6045 Neighboring gene uncharacterized LOC105370637 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8956 Neighboring gene uncharacterized LOC124903371 Neighboring gene long intergenic non-protein coding RNA 2292

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_190782.1 

    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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    95211986..95212035
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    89442201..89442250
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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