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LOC112272550 Sharpr-MPRA regulatory region 13811 [ Homo sapiens (human) ]

Gene ID: 112272550, updated on 10-Oct-2023

Summary

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Gene symbol
LOC112272550
Gene description
Sharpr-MPRA regulatory region 13811
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 unmatched - State 1:Tss, active promoter, TSS/CpG island region) and K562 erythroleukemia cells (group: K562 Activating DNase unmatched - State 1:Tss). [provided by RefSeq, Mar 2018]
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Genomic context

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See LOC112272550 in Genome Data Viewer
Location:
14q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (67819612..67819906)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (62026716..62027010)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (68286329..68286623)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene RNA, 7SL, cytoplasmic 213, pseudogene Neighboring gene zinc finger FYVE-type containing 26 Neighboring gene DnaJ heat shock protein family (Hsp40) member C9 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8586 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8587 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr14:68286883-68287644 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8588 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:68335343-68335842 Neighboring gene RAD51 paralog B Neighboring gene MPRA-validated peak2182 silencer Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:68395137-68396136 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:68552975-68553525 Neighboring gene centrosomal protein 170kDa pseudogene Neighboring gene uncharacterized LOC105370546 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr14:68604367-68605351 Neighboring gene RNA, 7SL, cytoplasmic 706, pseudogene

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_056688.1 

    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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    67819612..67819906
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    62026716..62027010
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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