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LOC121366056 Sharpr-MPRA regulatory region 14495 [ Homo sapiens (human) ]

Gene ID: 121366056, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121366056
Gene description
Sharpr-MPRA regulatory region 14495
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 1:Tss, active promoter, TSS/CpG island region). [provided by RefSeq, May 2021]
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Genomic context

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See LOC121366056 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 (60300491..60300785)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (61155475..61155769)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (62060249..62060543)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene NANOG hESC enhancer GRCh37_chr10:61549690-61550191 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:61562933-61563434 Neighboring gene Sharpr-MPRA regulatory region 6982 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:61607379-61608319 Neighboring gene Sharpr-MPRA regulatory region 3861 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3388 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3389 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3390 Neighboring gene coiled-coil domain containing 6 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2385 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3391 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:61667949-61668742 Neighboring gene Sharpr-MPRA regulatory region 3982 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2387 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2386 Neighboring gene long intergenic non-protein coding RNA 1553 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:61763136-61763882 Neighboring gene NANOG hESC enhancer GRCh37_chr10:61788258-61788759 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3392 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3393 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3394 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:61889195-61889380 Neighboring gene ankyrin 3 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:61889679-61890254 Neighboring gene NANOG hESC enhancer GRCh37_chr10:62018096-62018597 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2388 Neighboring gene uncharacterized LOC124902430 Neighboring gene ADP ribosylation factor like GTPase 4A pseudogene 1

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_074406.1 

    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
    60300491..60300785
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    61155475..61155769
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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