U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC130063783 ATAC-STARR-seq lymphoblastoid active region 14166 [ Homo sapiens (human) ]

Gene ID: 130063783, updated on 12-Sep-2024

Summary

Go to the top of the page Help
Gene symbol
LOC130063783
Gene description
ATAC-STARR-seq lymphoblastoid active region 14166
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]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LOC130063783 in Genome Data Viewer
Location:
chromosome: 19
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (14417921..14417970)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (14544590..14544639)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (14528733..14528782)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1841 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:14444577-14445252 Neighboring gene MPRA-validated peak3382 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14449292-14449792 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14449793-14450293 Neighboring gene long intergenic non-protein coding RNA 1842 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:14459126-14460004 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14460803-14461304 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14461305-14461804 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14160 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14161 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14162 Neighboring gene Sharpr-MPRA regulatory region 7322 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14163 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10244 Neighboring gene adhesion G protein-coupled receptor E5 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:14507248-14508447 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:14512346-14513545 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14515967-14516596 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:14516597-14517226 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14164 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14165 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10246 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10247 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14167 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14168 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10248 Neighboring gene DExD-box helicase 39A Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14169 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:14544012-14544585 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:14544586-14545158 Neighboring gene Sharpr-MPRA regulatory region 2073 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14170 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14171 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14555029-14555529 Neighboring gene Sharpr-MPRA regulatory region 3261 Neighboring gene protein kinase N1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:14582511-14583159 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:14586151-14586819 Neighboring gene prostaglandin E receptor 1

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the pageHelp

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

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See Variation Viewer (GRCh37.p13)

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_198200.1 

    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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    14417921..14417970
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    14544590..14544639
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases