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LOC121815969 Sharpr-MPRA regulatory region 11198 [ Homo sapiens (human) ]

Gene ID: 121815969, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121815969
Gene description
Sharpr-MPRA regulatory region 11198
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 K562 erythroleukemia cells (group: K562 Activating DNase unmatched - State 3:PromF, promoter flanking). [provided by RefSeq, Jul 2021]
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Genomic context

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See LOC121815969 in Genome Data Viewer
Location:
10q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (114634610..114634904)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (115528671..115528965)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (116394369..116394663)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene actin filament associated protein 1 like 2 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr10:116079781-116080980 Neighboring gene uncharacterized LOC105378494 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:116088199-116088844 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr10:116097011-116098210 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:116110152-116111044 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2844 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:116164296-116164796 Neighboring gene RNA, 7SL, cytoplasmic 384, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:116219699-116220200 Neighboring gene actin binding LIM protein 1 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr10:116247470-116248669 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:116249579-116250078 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4082 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4083 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr10:116259001-116260200 Neighboring gene Sharpr-MPRA regulatory region 9264 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:116278667-116279186 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4084 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4085 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4086 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4087 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4088 Neighboring gene small nucleolar RNA U13 Neighboring gene peptidylprolyl isomerase A pseudogene 19

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_075863.1 

    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
    114634610..114634904
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    115528671..115528965
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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