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LOC130008919 ATAC-STARR-seq lymphoblastoid active region 7128 [ Homo sapiens (human) ]

Gene ID: 130008919, updated on 12-Sep-2024

Summary

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Gene symbol
LOC130008919
Gene description
ATAC-STARR-seq lymphoblastoid active region 7128
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 LOC130008919 in Genome Data Viewer
Location:
chromosome: 12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (120119937..120119996)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (120107111..120107170)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (120557741..120557800)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:120540395-120540996 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:120540997-120541598 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:120541599-120542200 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:120542201-120542802 Neighboring gene RAB35, member RAS oncogene family Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:120547217-120547736 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:120547737-120548254 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:120548255-120548774 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7124 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr12:120553748-120554540 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr12:120554541-120555332 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4941 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:120555445-120555623 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:120556125-120556916 Neighboring gene RAB35 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7129 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7130 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7131 Neighboring gene GCN1 activator of EIF2AK4 Neighboring gene microRNA 4498 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7132 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr12:120622010-120623209 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4942 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:120635999-120636498 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:120636618-120637559 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7133 Neighboring gene ribosomal protein lateral stalk subunit P0

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_187488.1 

    Range
    101..160
    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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    120119937..120119996
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    120107111..120107170
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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