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LOC121530589 Sharpr-MPRA regulatory region 9099 [ Homo sapiens (human) ]

Gene ID: 121530589, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121530589
Gene description
Sharpr-MPRA regulatory region 9099
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 9:DNaseU, primarily UW DNase, weaker open chromatin sites). [provided by RefSeq, May 2021]
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Genomic context

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See LOC121530589 in Genome Data Viewer
Location:
15q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (70271430..70271724)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (68093615..68093909)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (70563769..70564063)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984734 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:70432131-70432636 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr15:70433141-70433644 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70472929-70473512 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70473513-70474096 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70479256-70479756 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70482961-70483463 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:70488483-70489266 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9675 Neighboring gene RNA, U6 small nuclear 745, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70505448-70506324 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9676 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70542989-70543572 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9677 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6608 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9678 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9679 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9680 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9681 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70558987-70559640 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70561356-70562034 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9682 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70584795-70585294 Neighboring gene uncharacterized LOC105370878 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9683 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9684 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9685 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70593533-70594034 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70615294-70615813 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70636737-70637238 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70654349-70654848 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70670319-70670820 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70670821-70671320 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70687219-70687723 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70690391-70690891 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70698815-70699316 Neighboring gene uncharacterized LOC124903519 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:70719956-70720463

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_074787.1 

    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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    70271430..70271724
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    68093615..68093909
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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