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LOC111946237 Sharpr-MPRA regulatory region 9590 [ Homo sapiens (human) ]

Gene ID: 111946237, updated on 10-Oct-2023

Summary

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Gene symbol
LOC111946237
Gene description
Sharpr-MPRA regulatory region 9590
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 13:Ctcf, distal CTCF/candidate insulator without open chromatin) and K562 erythroleukemia cells (group: K562 Activating non-DNase unmatched - State 12:CtcfO, distal CTCF/candidate insulator with open chromatin). [provided by RefSeq, Feb 2018]
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Genomic context

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Location:
10q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (42975621..42975915)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (43853086..43853380)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (43471069..43471363)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene BMS1 ribosome biogenesis factor Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:43332057-43333007 Neighboring gene RNA, U6 small nuclear 885, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:43361281-43361914 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:43361915-43362548 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:43366313-43366814 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:43366815-43367314 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43369982-43370710 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43373919-43374419 Neighboring gene long intergenic non-protein coding RNA 2623 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43380976-43381476 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:43398966-43399195 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:43430829-43431004 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43434211-43434711 Neighboring gene VISTA enhancer hs2327 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43455918-43456418 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43465538-43466244 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43469403-43470373 Neighboring gene VISTA enhancer hs2497 Neighboring gene long intergenic non-protein coding RNA 1264 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43483113-43483758 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43485513-43486245 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43492878-43493378 Neighboring gene microRNA 5100

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 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_056326.1 

    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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    42975621..42975915
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    43853086..43853380
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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