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LOC130059252 ATAC-STARR-seq lymphoblastoid active region 10995 [ Homo sapiens (human) ]

Gene ID: 130059252, updated on 12-Sep-2024

Summary

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Gene symbol
LOC130059252
Gene description
ATAC-STARR-seq lymphoblastoid active region 10995
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 LOC130059252 in Genome Data Viewer
Location:
chromosome: 16
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (67936250..67936529)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (73732024..73732303)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (67970153..67970432)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:67918365-67918874 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:67918875-67919382 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7631 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7632 Neighboring gene neuritin 1 like Neighboring gene protein serine kinase H1 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:67944133-67944345 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:67949619-67950142 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:67953295-67953800 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:67960875-67961376 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:67962749-67963459 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:67964222-67964739 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:67964740-67965256 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10993 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10994 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10996 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:67973687-67974296 Neighboring gene chymotrypsin like Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10998 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:67976255-67977154 Neighboring gene proteasome 20S subunit beta 10 Neighboring gene solute carrier family 12 member 4 Neighboring gene lecithin-cholesterol acyltransferase Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:67992978-67994177 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:67998939-67999110 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:68000156-68000674 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7633 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7634 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7635 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:68013726-68014226 Neighboring gene dipeptidase 3

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_193673.1 

    Range
    101..380
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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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    67936250..67936529
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    73732024..73732303
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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