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    NBDY negative regulator of P-body association [ Homo sapiens (human) ]

    Gene ID: 550643, updated on 2-Nov-2024

    Summary

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    Official Symbol
    NBDYprovided by HGNC
    Official Full Name
    negative regulator of P-body associationprovided by HGNC
    Primary source
    HGNC:HGNC:50713
    See related
    Ensembl:ENSG00000204272 MIM:300992; AllianceGenome:HGNC:50713
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    NoBody; LINC01420
    Summary
    Involved in negative regulation of cytoplasmic mRNA processing body assembly and nuclear-transcribed mRNA catabolic process. Located in P-body. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 34.2), adrenal (RPKM 31.8) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See NBDY in Genome Data Viewer
    Location:
    Xp11.21
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (56729243..56819179)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (56022640..56117983)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (56755676..56845612)

    Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:56589763-56590390 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29687 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29688 Neighboring gene ubiquilin 2 Neighboring gene uncharacterized LOC124905194 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29689 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20869 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29690 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29691 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:56790193-56790694 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29693 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29694 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29695 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:56796358-56796874 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:56796875-56797391 Neighboring gene ubiquinol-cytochrome c reductase binding protein pseudogene 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:56798078-56798669 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:56798670-56799260 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:56799261-56799852 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:56804396-56805293 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:56805294-56806192 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29696 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29697 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29698 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29699 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29700 Neighboring gene Sharpr-MPRA regulatory region 15663 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29701 Neighboring gene spindlin family member 3 Neighboring gene SPIN2 family pseudogene 1

    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 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. The NBDY Microprotein Regulates Cellular RNA Decapping. Na Z, et al. Biochemistry, 2020 Oct 27. PMID 33059440, Free PMC Article
    2. LINC01420 RNA structure and influence on cell physiology. Konina DO, et al. BMC Genomics, 2019 May 8. PMID 32039714, Free PMC Article
    3. Assembly and regulation of the mammalian mRNA processing body. Bloch DB, et al. PLoS One, 2023. PMID 36877681, Free PMC Article
    4. Long Non-coding RNA LINC01420 Contributes to Pancreatic Cancer Progression Through Targeting KRAS Proto-oncogene. Zhai H, et al. Dig Dis Sci, 2020 Apr. PMID 31562613
    5. A human microprotein that interacts with the mRNA decapping complex. D'Lima NG, et al. Nat Chem Biol, 2017 Feb. PMID 27918561, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Long Non-coding RNA LINC01420 Contributes to Pancreatic Cancer Progression Through Targeting KRAS Proto-oncogene.
      Title: Long Non-coding RNA LINC01420 Contributes to Pancreatic Cancer Progression Through Targeting KRAS Proto-oncogene.
    2. LINC01420 RNA structure and influence on cell physiology
      Title: LINC01420 RNA structure and influence on cell physiology.
    3. results implicate NoBody as a novel component of the mRNA decapping complex and demonstrate potential functionality of a newly discovered microprotein
      Title: A human microprotein that interacts with the mRNA decapping complex.
    Submit: New GeneRIF Correction

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Genome-wide association study identifies loci affecting blood copper, selenium and zinc.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of cytoplasmic mRNA processing body assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in P-body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    negative regulator of P-body association
    Names
    P-body dissociating protein
    long intergenic non-protein coding RNA 1420
    non-annotated P-body dissociating polypeptide
    protein NoBody

    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.

    mRNA and Protein(s)

    1. NM_001348129.2 → NP_001335058.1  negative regulator of P-body association

      Status: VALIDATED

      Source sequence(s)
      AA131515, AL158200, AL354865, BC048131, BX537532, CA444043
      Consensus CDS
      CCDS87751.1
      UniProtKB/Swiss-Prot
      A0A0U1RRE5
      UniProtKB/TrEMBL
      A0A4P8PLQ7
      Related
      ENSP00000489583.1, ENST00000374922.9
      Conserved Domains (1) summary
      cd20243
      Location:1 → 68
      NoBody; Negative regulator of P-body association

    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_000023.11 Reference GRCh38.p14 Primary Assembly

      Range
      56729243..56819179
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060947.1 Alternate T2T-CHM13v2.0

      Range
      56022640..56117983
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A0A0U1RRE5.1 GenPept UniProtKB/Swiss-Prot:A0A0U1RRE5

    Gene LinkOut

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