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LOC130059271 ATAC-STARR-seq lymphoblastoid active region 11008 [ Homo sapiens (human) ]

Gene ID: 130059271, updated on 14-Oct-2023

Summary

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Gene symbol
LOC130059271
Gene description
ATAC-STARR-seq lymphoblastoid active region 11008
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 LOC130059271 in Genome Data Viewer
Location:
chromosome: 16
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (68227437..68227486)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (74023184..74023233)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene nuclear factor of activated T cells 3 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11007 Neighboring gene ribosomal protein S12 pseudogene 27 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7641 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:68270229-68270817 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:68270818-68271405 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:68271406-68271994 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:68271995-68272581 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:68278082-68278620 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7644 Neighboring gene microRNA 6773 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:68279742-68280242 Neighboring gene epithelial splicing regulatory protein 2 Neighboring gene phospholipase A2 group XV

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_193692.1 

    Range
    101..150
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    68227437..68227486
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    74023184..74023233
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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