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LOC130061760 ATAC-STARR-seq lymphoblastoid active region 12831 [ Homo sapiens (human) ]

Gene ID: 130061760, updated on 12-Sep-2024

Summary

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Gene symbol
LOC130061760
Gene description
ATAC-STARR-seq lymphoblastoid active region 12831
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 LOC130061760 in Genome Data Viewer
Location:
chromosome: 17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (77405174..77405223)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (78298970..78299019)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (75401256..75401305)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene septin 9 Neighboring gene uncharacterized LOC124904062 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:75385497-75386227 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:75387689-75388418 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:75388419-75389149 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:75389150-75389879 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:75394009-75394727 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9035 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:75405296-75405800 Neighboring gene microRNA 4316 Neighboring gene uncharacterized LOC112268199 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:75415683-75416350 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:75418355-75419020 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:75419156-75419960 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12832 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:75422645-75423553 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12833 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12834 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:75430535-75431348 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12835 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:75433791-75434604 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12836 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12837 Neighboring gene uncharacterized LOC112268198 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12838 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12839 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12840

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_196881.1 

    Range
    101..150
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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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    77405174..77405223
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    78298970..78299019
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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