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LOC108353818 C15orf54-THBS1 intergenic CAGE-defined monocyte enhancer [ Homo sapiens (human) ]

Gene ID: 108353818, updated on 10-Oct-2023

Summary

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Gene symbol
LOC108353818
Gene description
C15orf54-THBS1 intergenic CAGE-defined monocyte enhancer
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 element is located in the intergenic region between the C15orf54 (chromosome 15 open reading frame 54) and THBS1 (thrombospondin 1) genes. It was defined as a tissue-specific transcribed enhancer based on the co-occurrence of H3K4me1, H3K27ac and DNase hypersensitive epigenetic marks with the presence of balanced bidirectional capped transcripts by cap analysis of gene expression (CAGE) in monocytes. It was validated as a functional enhancer by reporter assays in THP-1 monocytes. [provided by RefSeq, Jul 2016]
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Genomic context

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See LOC108353818 in Genome Data Viewer
Location:
15q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (39468320..39469437)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (37273126..37274243)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (39760521..39761638)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370777 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:39567067-39567568 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:39567569-39568068 Neighboring gene long intergenic non-protein coding RNA 2915 Neighboring gene Sharpr-MPRA regulatory region 6993 Neighboring gene uncharacterized LOC124903468 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6309 Neighboring gene uncharacterized LOC105370783 Neighboring gene uncharacterized LOC124903469

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. An atlas of active enhancers across human cell types and tissues. Andersson R, et al. Nature, 2014 Mar 27. PMID 24670763, 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 Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • FANTOM5 blood enhancer near THBS1

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_051209.1 

    Range
    101..1218
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    39468320..39469437
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    37273126..37274243
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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