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    USP38-DT USP38 divergent transcript [ Homo sapiens (human) ]

    Gene ID: 105377623, updated on 10-Dec-2024

    Summary

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    Official Symbol
    USP38-DTprovided by HGNC
    Official Full Name
    USP38 divergent transcriptprovided by HGNC
    Primary source
    HGNC:HGNC:55554
    See related
    Ensembl:ENSG00000250326 AllianceGenome:HGNC:55554
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Expression
    Broad expression in testis (RPKM 1.1), lymph node (RPKM 0.6) and 24 other tissues See more
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    Genomic context

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    See USP38-DT in Genome Data Viewer
    Location:
    4q31.21
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (142788442..143184861, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (146105645..146502029, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (143709595..144106014, complement)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene inositol polyphosphate-4-phosphatase type II B Neighboring gene LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated pseudogene 4 Neighboring gene uncharacterized LOC101927613 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21939 Neighboring gene uncharacterized LOC105377457 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:143768211-143768797 Neighboring gene uncharacterized LOC124900788 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21940 Neighboring gene LysM domain containing 4 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:143992683-143993182 Neighboring gene Sharpr-MPRA regulatory region 2118 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:144105120-144106005 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:144106006-144106890 Neighboring gene NANOG hESC enhancer GRCh37_chr4:144169634-144170135 Neighboring gene ubiquitin specific peptidase 38 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21941 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:144257238-144257405 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15719 Neighboring gene uncharacterized LOC124900789 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15720 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:144257955-144258768 Neighboring gene GRB2 associated binding protein 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, 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 studies and variants in dbVar

    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.

    RNA

    1. NR_136203.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC116175
      Related
      ENST00000657857.2

    2. NR_185979.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC093885, AC114756, AC116175

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      142788442..143184861 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      146105645..146502029 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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