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LOC123956132 Sharpr-MPRA regulatory region 7218 [ Homo sapiens (human) ]

Gene ID: 123956132, updated on 10-Oct-2023

Summary

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Gene symbol
LOC123956132
Gene description
Sharpr-MPRA regulatory region 7218
Gene type
biological region
Feature type(s)
regulatory: silencer
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 repressive element 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 Repressive non-DNase unmatched - State 24:Quies, heterochromatin/dead zone) and K562 erythroleukemia cells (group: K562 Repressive non-DNase unmatched - State 24:Quies). [provided by RefSeq, Jan 2022]
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Genomic context

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Location:
7p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (37531286..37531580)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (37671771..37672065)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (37570889..37571183)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene engulfment and cell motility 1 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:37415805-37417004 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25858 Neighboring gene uncharacterized LOC124900242 Neighboring gene ribosomal protein S10 pseudogene 14 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18103 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18104 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:37569874-37570374 Neighboring gene NECAP endocytosis associated 1 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25859 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:37745514-37745731 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25860 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18105 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25861 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18106 Neighboring gene G protein-coupled receptor 141

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_078327.1 

    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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    37531286..37531580
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    37671771..37672065
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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