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    LOC123956183 Sharpr-MPRA regulatory region 10792 [ Homo sapiens (human) ]

    Gene ID: 123956183, updated on 10-Oct-2023

    Summary

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    Gene symbol
    LOC123956183
    Gene description
    Sharpr-MPRA regulatory region 10792
    Gene type
    biological region
    Feature type(s)
    regulatory: silencer
    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 repressive element 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 Repressive non-DNase unmatched - State 13:Ctcf, distal CTCF/candidate insulator without open chromatin). [provided by RefSeq, Jan 2022]
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    Genomic context

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    See LOC123956183 in Genome Data Viewer
    Location:
    7q
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (96800937..96801231)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (98036651..98036945)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (96430249..96430543)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105375412 Neighboring gene SEM1 26S proteasome subunit Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:96187264-96187852 Neighboring gene uncharacterized LOC107986825 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:96214245-96214746 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:96214747-96215246 Neighboring gene eDlx#16 enhancer in SHFM1 region Neighboring gene eDlx#14 enhancer in SHFM1 region Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:96286728-96287228 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:96287229-96287729 Neighboring gene Sharpr-MPRA regulatory region 6945 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26297 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26298 Neighboring gene uncharacterized LOC105375414 Neighboring gene eDlx#8 enhancer in SHFM1 region Neighboring gene MARK2 pseudogene 10 Neighboring gene 5K-Del enhancer in SHFM1 region Neighboring gene RNA, 7SL, cytoplasmic 252, pseudogene

    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_078377.1 

      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
      96800937..96801231
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      98036651..98036945
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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