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LOC130001267 ATAC-STARR-seq lymphoblastoid active region 28037 [ Homo sapiens (human) ]

Gene ID: 130001267, updated on 12-Sep-2024

Summary

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Gene symbol
LOC130001267
Gene description
ATAC-STARR-seq lymphoblastoid active region 28037
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 LOC130001267 in Genome Data Viewer
Location:
chromosome: 8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (140599233..140599322)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (141719612..141719701)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (141609332..141609421)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:141474198-141475397 Neighboring gene uncharacterized LOC105375782 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19579 Neighboring gene MPRA-validated peak7190 silencer Neighboring gene ReSE screen-validated silencer GRCh37_chr8:141518766-141518946 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28027 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28028 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19580 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28029 Neighboring gene chromatin accessibility complex subunit 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141537549-141538050 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141538051-141538550 Neighboring gene argonaute RISC catalytic component 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141554768-141555545 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141559982-141560482 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr8:141567119-141568318 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr8:141569579-141570778 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141578119-141578876 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28030 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28031 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28032 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141603574-141604074 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28034 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:141607590-141608092 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28036 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:141619067-141620038 Neighboring gene MAGE-like protein 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141634221-141635220 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141635221-141636221 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141640637-141641137 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:141643203-141643970 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:141643971-141644737 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19582 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19583 Neighboring gene E2F1-regulated inhibitor of cell death

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_180713.1 

    Range
    101..190
    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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    140599233..140599322
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    141719612..141719701
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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