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LOC130063726 ATAC-STARR-seq lymphoblastoid active region 14135 [ Homo sapiens (human) ]

Gene ID: 130063726, updated on 12-Sep-2024

Summary

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Gene symbol
LOC130063726
Gene description
ATAC-STARR-seq lymphoblastoid active region 14135
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 LOC130063726 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 (13774287..13774486)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (13900487..13900686)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (13885101..13885300)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14133 Neighboring gene YJU2 splicing factor homolog B Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10207 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:13873547-13874063 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10208 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:13876533-13877162 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14134 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:13885277-13885806 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:13885807-13886335 Neighboring gene methylthioribose-1-phosphate isomerase 1 Neighboring gene chromosome 19 open reading frame 53 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:13896673-13897634 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14136 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10209 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10210 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14137 Neighboring gene zinc finger SWIM-type containing 4 Neighboring gene uncharacterized LOC107985334 Neighboring gene MPRA-validated peak3376 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:13928069-13928736 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:13928737-13929405 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:13929406-13930073 Neighboring gene RNA, 7SL, cytoplasmic 619, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:13936598-13937294 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14139 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14140 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10211 Neighboring gene miR-23a/27a/24-2 cluster host gene Neighboring gene microRNA 24-2

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_198143.1 

    Range
    101..300
    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
    13774287..13774486
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    13900487..13900686
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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