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LOC121392954 Sharpr-MPRA regulatory region 2456 [ Homo sapiens (human) ]

Gene ID: 121392954, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121392954
Gene description
Sharpr-MPRA regulatory region 2456
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 HepG2 liver carcinoma cells (group: HepG2 Activating DNase matched - State 5:Enh, candidate strong enhancer, open chromatin). [provided by RefSeq, May 2021]
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Genomic context

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Location:
11q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (134742995..134743289)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (134787381..134787675)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (134612889..134613183)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105369583 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:134571176-134571680 Neighboring gene long intergenic non-protein coding RNA 2706 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:134599270-134599886 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr11:134617746-134618945 Neighboring gene NANOG hESC enhancer GRCh37_chr11:134618982-134619663 Neighboring gene long intergenic non-protein coding RNA 2714 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:134671658-134672158 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:134721213-134722412 Neighboring gene Sharpr-MPRA regulatory region 927 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:134775628-134776555 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:134811107-134811935 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:134817200-134817700 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:134817701-134818201 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr11:134818754-134819953 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:134831501-134832001 Neighboring gene long intergenic non-protein coding RNA 2697 Neighboring gene uncharacterized LOC100507548

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_074611.1 

    Range
    101..395
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    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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    134742995..134743289
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    134787381..134787675
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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