U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC112272610 Sharpr-MPRA regulatory region 11672 [ Homo sapiens (human) ]

Gene ID: 112272610, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC112272610
Gene description
Sharpr-MPRA regulatory region 11672
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 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 20:ReprD, Polycomb repression with Duke DNase/promoter and conservation enriched) and K562 erythroleukemia cells (group: K562 Activating non-DNase unmatched - State 24:Quies, heterochromatin/dead zone). [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
Location:
15q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (69627790..69628084)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (67449891..67450185)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (69920129..69920423)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA U3 Neighboring gene H3K27ac-H3K4me1 hESC enhancers GRCh37_chr15:69754627-69755133 and GRCh37_chr15:69755134-69755641 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9657 Neighboring gene long intergenic non-protein coding RNA 2896 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:69791851-69792352 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9658 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr15:69818533-69819113 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr15:69819114-69819694 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:69850399-69850902 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:69850903-69851404 Neighboring gene uncharacterized LOC124903517 Neighboring gene downregulated RNA in cancer, inhibitor of cell invasion and migration Neighboring gene prostate cancer associated transcript 29 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:69938726-69939304 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:69957399-69958014 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:69958631-69959245 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9661 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9662 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_40793 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6601 Neighboring gene uncharacterized LOC107984788 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9663 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:70086634-70087136 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:70090778-70091977 Neighboring gene gem nuclear organelle associated protein 8 pseudogene 1

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_056746.1 

    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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    69627790..69628084
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    67449891..67450185
    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
Research Materials