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LOC121740678 Sharpr-MPRA regulatory region 15680 [ Homo sapiens (human) ]

Gene ID: 121740678, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121740678
Gene description
Sharpr-MPRA regulatory region 15680
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 24:Quies, heterochromatin/dead zone). [provided by RefSeq, Jun 2021]
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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 (41054291..41054585)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (41212147..41212441)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (41093889..41094183)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene succinyl-CoA:glutarate-CoA transferase Neighboring gene uncharacterized LOC105375242 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:40924401-40925600 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr7:41045810-41047009 Neighboring gene long intergenic non-protein coding RNA 1450 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:41068008-41069207 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr7:41098757-41099608 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr7:41104940-41106139 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25894 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25895 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:41146908-41148107 Neighboring gene uncharacterized LOC105375241 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18119 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25896 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25897 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25898 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:41174879-41175380 Neighboring gene long intergenic non-protein coding RNA 1449 Neighboring gene uncharacterized LOC105375246

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_075740.1 

    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
    41054291..41054585
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    41212147..41212441
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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