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LOC121627968 Sharpr-MPRA regulatory region 12888 [ Homo sapiens (human) ]

Gene ID: 121627968, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121627968
Gene description
Sharpr-MPRA regulatory region 12888
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 matched - State 8:EnhW, candidate weak enhancer and open chromatin). [provided by RefSeq, Jun 2021]
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Genomic context

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Location:
Xp
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (44971704..44971998)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (44378549..44378843)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (44830949..44831243)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373190 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20783 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20784 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20787 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20785 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20786 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:44738216-44738357 Neighboring gene dual specificity phosphatase 21 Neighboring gene lysine demethylase 6A Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:44811731-44812256 Neighboring gene MED14-independent group 3 enhancer GRCh37_chrX:44834497-44835696 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20788 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29568 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:44900925-44901669 Neighboring gene divergent protein kinase domain 2B Neighboring gene uncharacterized LOC105373191

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_075448.1 

    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_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    44971704..44971998
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    44378549..44378843
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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