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LOC121847980 Sharpr-MPRA regulatory region 15326 [ Homo sapiens (human) ]

Gene ID: 121847980, updated on 12-Sep-2024

Summary

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Gene symbol
LOC121847980
Gene description
Sharpr-MPRA regulatory region 15326
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 8:EnhW, candidate weak enhancer and open chromatin). [provided by RefSeq, Jul 2021]
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Genomic context

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See LOC121847980 in Genome Data Viewer
Location:
16p
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (31451808..31452102)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (31839203..31839497)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (31463129..31463423)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene cytochrome c oxidase subunit 6A2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:31446802-31447302 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:31447884-31448054 Neighboring gene zinc finger protein 843 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:31453737-31454532 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:31464004-31464776 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:31464777-31465548 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:31468736-31469304 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:31469952-31470492 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10764 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7419 Neighboring gene armadillo repeat containing 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:31483812-31484352 Neighboring gene transforming growth factor beta 1 induced transcript 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:31486867-31487599 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:31487600-31488331 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:31488332-31489064

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_076006.1 

    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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    31451808..31452102
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    31839203..31839497
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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