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LOC130056541 ATAC-STARR-seq lymphoblastoid active region 9083 [ Homo sapiens (human) ]

Gene ID: 130056541, updated on 12-Sep-2024

Summary

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Gene symbol
LOC130056541
Gene description
ATAC-STARR-seq lymphoblastoid active region 9083
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 LOC130056541 in Genome Data Viewer
Location:
chromosome: 14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (102790468..102790537)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (97026777..97026846)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (103256805..103256874)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124903390 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:103213106-103213279 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103216089-103216923 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9078 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9079 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103224133-103224633 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9081 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103236826-103237330 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103237331-103237835 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9082 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6128 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6129 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6130 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6131 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:103249335-103249487 Neighboring gene small nucleolar RNA U13 Neighboring gene TNF receptor associated factor 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9084 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9085 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:103276021-103276180 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6132 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9086 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9087 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9088 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9089 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9090 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103294403-103294902 Neighboring gene NANOG hESC enhancer GRCh37_chr14:103307110-103307650 Neighboring gene RNA, U6 small nuclear 1316, pseudogene Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr14:103352003-103353202 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103357046-103357546 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103357547-103358047 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103366521-103367022 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103367023-103367522 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9091 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103379429-103380018 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103380019-103380608 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:103380952-103381452 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9092 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6134 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:103390587-103390785 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6135 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6136 Neighboring gene amnion associated transmembrane protein

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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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_190962.1 

    Range
    101..170
    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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    102790468..102790537
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    97026777..97026846
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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