U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC112296180 Sharpr-MPRA regulatory region 10157 [ Homo sapiens (human) ]

Gene ID: 112296180, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC112296180
Gene description
Sharpr-MPRA regulatory region 10157
Gene type
biological region
Feature type(s)
regulatory: enhancer, silencer
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 was predicted to be a transcriptional regulatory region based on chromatin state analysis from the ENCODE (ENCyclopedia Of DNA Elements) project. It was validated as a functional enhancer by the Sharpr-MPRA technique (Systematic high-resolution activation and repression profiling with reporter tiling using massively parallel reporter assays) in both HepG2 liver carcinoma cells (group: HepG2 Activating DNase matched - State 5:Enh, candidate strong enhancer, open chromatin). It also displayed weak repressive activity by Sharpr-MPRA in K562 erythroleukemia cells (group: K562 Repressive DNase unmatched - State 7:EnhWF, candidate poised/weak enhancer; flanking open chromatin of candidate enhancers). [provided by RefSeq, Apr 2018]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LOC112296180 in Genome Data Viewer
Location:
16p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (11311732..11312026)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (11347942..11348236)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (11405589..11405883)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371082 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10430 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11391651-11392334 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10431 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10432 Neighboring gene microRNA 548h-2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11408487-11409184 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11409185-11409882 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11409883-11410580 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11414774-11415369 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10433 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10434 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10435 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10436 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10437 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr16:11422541-11423320 Neighboring gene uncharacterized LOC105371083 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7202 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7203 Neighboring gene RecQ mediated genome instability 2

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions. Ernst J, et al. Nat Biotechnol, 2016 Nov. PMID 27701403, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See Variation Viewer (GRCh37.p13)

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_056765.1 

    Range
    101..395
    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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    11311732..11312026
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    11347942..11348236
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases