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LOC121530585 Sharpr-MPRA regulatory region 9569 [ Homo sapiens (human) ]

Gene ID: 121530585, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121530585
Gene description
Sharpr-MPRA regulatory region 9569
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 21:Repr, strong Polycomb repression). [provided by RefSeq, May 2021]
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Genomic context

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See LOC121530585 in Genome Data Viewer
Location:
15q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (62698630..62698924)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (60502118..60502412)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (62990829..62991123)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene talin 2 Neighboring gene uncharacterized LOC105370855 Neighboring gene uncharacterized protein MGC15885 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:62982679-62983533 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:63000369-63001140 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:63014118-63014618 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:63014619-63015119 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:63035758-63035913 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr15:63050295-63051092 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:63051093-63051890 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:63062481-63062994 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:63074305-63075233 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:63088457-63088957 Neighboring gene uncharacterized LOC105370854 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:63126856-63128055 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:63137585-63138085 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:63138767-63139268 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:63139269-63139768 Neighboring gene microRNA 190a Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:63167575-63168413

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_074783.1 

    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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    62698630..62698924
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    60502118..60502412
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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