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LOC111828527 Sharpr-MPRA regulatory regions 13021 and 15353 [ Homo sapiens (human) ]

Gene ID: 111828527, updated on 10-Oct-2023

Summary

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Gene symbol
LOC111828527
Gene description
Sharpr-MPRA regulatory regions 13021 and 15353
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. Two overlapping sub-regions were validated as functional enhancers by the Sharpr-MPRA technique (Systematic high-resolution activation and repression profiling with reporter tiling using massively parallel reporter assays) in both HepG2 liver carcinoma cells (group: HepG2 Activating DNase unmatched - State 1:Tss, active promoter, TSS/CpG island region) and K562 erythroleukemia cells (group: K562 Activating DNase matched - State 8:EnhW, candidate weak enhancer and open chromatin). [provided by RefSeq, Jan 2018]
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Genomic context

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See LOC111828527 in Genome Data Viewer
Location:
6p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (37791393..37791707)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (37616159..37616473)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (37759169..37759483)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124901313 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:37551989-37552662 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:37552663-37553335 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17143 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24477 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17144 Neighboring gene MAM domain containing glycosylphosphatidylinositol anchor 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:37663553-37664282 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:37664283-37665012 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17147 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17148 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17149 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17150 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17151 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17152 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17153 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:37695835-37696335 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24478 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:37717757-37718578 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:37730195-37730696 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:37744227-37744777 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:37744845-37745776 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_91469 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24480 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:37787069-37787871 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17156 Neighboring gene ZFAND3 divergent transcript Neighboring gene RNA, 7SL, cytoplasmic 285, pseudogene Neighboring gene zinc finger AN1-type containing 3

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)

General gene information

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Other Names

  • Sharpr-MPRA regulatory region 13021
  • Sharpr-MPRA regulatory region 15353

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_056251.1 

    Range
    101..415
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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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    37791393..37791707
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    37616159..37616473
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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