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LOC121740657 Sharpr-MPRA regulatory region 11142 [ Homo sapiens (human) ]

Gene ID: 121740657, updated on 12-Sep-2024

Summary

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Gene symbol
LOC121740657
Gene description
Sharpr-MPRA regulatory region 11142
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 non-DNase unmatched - State 24:Quies, heterochromatin/dead zone). [provided by RefSeq, Jun 2021]
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Genomic context

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See LOC121740657 in Genome Data Viewer
Location:
6q
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (82017392..82017686)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (83226792..83227086)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (82727109..82727403)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105377873 Neighboring gene small nucleolar RNA SNORA70 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24775 Neighboring gene long intergenic non-protein coding RNA 1526 Neighboring gene long intergenic non-protein coding RNA 2542 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr6:82647366-82648565 Neighboring gene MPRA-validated peak5921 silencer Neighboring gene uncharacterized LOC107986617 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24776 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr6:82853903-82855102 Neighboring gene inhibitor of Bruton tyrosine kinase Neighboring gene MPRA-validated peak5922 silencer Neighboring gene RNA, U6 small nuclear 130, pseudogene Neighboring gene NANOG hESC enhancer GRCh37_chr6:82949825-82950342 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17353 Neighboring gene single stranded DNA binding protein 2 pseudogene Neighboring gene Sharpr-MPRA regulatory region 1235

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_075719.1 

    Range
    101..395
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    82017392..82017686
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    83226792..83227086
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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