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LOC112296183 Sharpr-MPRA regulatory region 8349 [ Homo sapiens (human) ]

Gene ID: 112296183, updated on 10-Oct-2023

Summary

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Gene symbol
LOC112296183
Gene description
Sharpr-MPRA regulatory region 8349
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 non-DNase unmatched - State 1:Tss, active promoter, TSS/CpG island region) and K562 erythroleukemia cells (group: K562 Activating DNase unmatched - State 20:ReprD, Polycomb repression with Duke DNase/promoter and conservation enriched). [provided by RefSeq, Apr 2018]
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Genomic context

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Location:
16p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (11640533..11640827)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (11676602..11676896)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (11734389..11734683)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene putative uncharacterized protein LOC400499 Neighboring gene uncharacterized LOC101927131 Neighboring gene uncharacterized LOC124903807 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:11564147-11564648 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11588027-11589023 Neighboring gene Sharpr-MPRA regulatory region 8116 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:11592015-11592563 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11595297-11596228 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:11610059-11610587 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:11612139-11612638 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:11620432-11621366 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:11621367-11622300 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr16:11637410-11638225 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11654074-11654928 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:11656029-11656658 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11657289-11657918 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:11657919-11658546 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:11665841-11666778 Neighboring gene Sharpr-MPRA regulatory region 2706 Neighboring gene lipopolysaccharide induced TNF factor Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10450 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7205 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7204 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:11688769-11689642 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:11689643-11690514 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11697089-11697681 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:11699131-11699630 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10451 Neighboring gene Sharpr-MPRA regulatory region 4417 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11708187-11708794 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11708795-11709402 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11715855-11716623 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11720940-11721474 Neighboring gene uncharacterized LOC124903643 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:11735633-11736296 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7206 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10455 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:11766535-11767354 Neighboring gene nonconserved acetylation island sequence 94 enhancer Neighboring gene thioredoxin domain containing 11 Neighboring gene stannin Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10456 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:11836693-11837215 Neighboring gene TXNDC11 antisense RNA 1

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. 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

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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_056768.1 

    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
    11640533..11640827
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    11676602..11676896
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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