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    LOC338963 epididymal protein pseudogene [ Homo sapiens (human) ]

    Gene ID: 338963, updated on 16-Jan-2024

    Summary

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    Gene symbol
    LOC338963
    Gene description
    epididymal protein pseudogene
    See related
    Ensembl:ENSG00000293439
    Gene type
    pseudo
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Expression
    Restricted expression toward testis (RPKM 3.1) See more
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    Genomic context

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    Location:
    15q25.2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (82710471..82713993, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (80574714..80578236, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (83379223..83382745, complement)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene cytoplasmic polyadenylation element binding protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6750 Neighboring gene CPEB1 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 5793 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6751 Neighboring gene adaptor related protein complex 3 subunit beta 2 Neighboring gene serine and arginine rich splicing factor 9 pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr15:83362511-83362661 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:83367432-83368224 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:83368225-83369015 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6752 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6753 Neighboring gene actin gamma 1 pseudogene 17 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9964 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9965 Neighboring gene small Cajal body-specific RNA 15 Neighboring gene small nucleolar RNA host gene 21 Neighboring gene fibronectin type III and SPRY domain containing 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Plasma lncRNA LOC338963 and mRNA AP3B2 are upregulated in paraneoplastic Lambert-Eaton myasthenic syndrome. Yang F, et al. Muscle Nerve, 2022 Aug. PMID 35508598
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Plasma lncRNA LOC338963 and mRNA AP3B2 are upregulated in paraneoplastic Lambert-Eaton myasthenic syndrome.
      Title: Plasma lncRNA LOC338963 and mRNA AP3B2 are upregulated in paraneoplastic Lambert-Eaton myasthenic syndrome.
    Submit: New GeneRIF Correction

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    General gene information

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    Markers

    Clone Names

    • AC105339.1

    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_034139.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      BC041443
      Related
      ENST00000440089.1

    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_000015.10 Reference GRCh38.p14 Primary Assembly

      Range
      82710471..82713993 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      80574714..80578236 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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