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LOC121853010 Sharpr-MPRA regulatory region 6651 [ Homo sapiens (human) ]

Gene ID: 121853010, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121853010
Gene description
Sharpr-MPRA regulatory region 6651
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 non-DNase unmatched - State 20:ReprD, Polycomb repression w. Duke DNase/promoter and conservation enriched). [provided by RefSeq, Jul 2021]
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Genomic context

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See LOC121853010 in Genome Data Viewer
Location:
20q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (48638551..48638845)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (50408368..50408662)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (47255089..47255383)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372647 Neighboring gene NANOG hESC enhancer GRCh37_chr20:47139607-47140108 Neighboring gene uncharacterized LOC105372646 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18022 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:47215027-47215985 Neighboring gene Sharpr-MPRA regulatory region 8803 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_60582 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:47235455-47235955 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:47235991-47236699 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12983 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18023 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18024 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:47259130-47259274 Neighboring gene phosphatidylinositol-3,4,5-trisphosphate dependent Rac exchange factor 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12984 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:47299567-47300316 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:47310619-47311119 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_60598 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_60600 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:47319614-47320114 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_60606 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18025 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18026 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18027 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18028 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12985 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18029 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18030 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18031 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18032 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18033 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18034 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:47339203-47340102 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18036 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:47364075-47364807 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:47365963-47366558 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18037 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:47374563-47375557 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12986 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18039 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:47379434-47380209 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:47381423-47381601 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:47388421-47388642 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18040 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18041 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18042 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18043 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18044 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18045 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12987 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:47410381-47411036 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:47411037-47411690 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:47414263-47414873 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:47415894-47416394 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:47435997-47436994 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18046 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18047 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12988 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12989 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18048 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18049 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18050 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:47474509-47475009 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18051 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12990 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12991 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12992 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18052 Neighboring gene ADP ribosylation factor guanine nucleotide exchange factor 2 Neighboring gene synaptosome associated protein 23 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_076118.1 

    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_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    48638551..48638845
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    50408368..50408662
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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