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    Dcp1b decapping mRNA 1B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500305, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Dcp1bprovided by RGD
    Official Full Name
    decapping mRNA 1Bprovided by RGD
    Primary source
    RGD:1562214
    See related
    EnsemblRapid:ENSRNOG00000007340 AllianceGenome:RGD:1562214
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1562214
    Summary
    Predicted to enable mRNA binding activity. Predicted to be involved in cellular response to interleukin-17; mRNA methylguanosine-cap decapping; and protein localization to organelle. Predicted to be located in cytosol and intracellular membrane-bounded organelle. Predicted to be active in P-body. Orthologous to human DCP1B (decapping mRNA 1B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 46.2), Heart (RPKM 34.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Dcp1b in Genome Data Viewer
    Location:
    4q42
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (154030181..154068038)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (152358267..152395747)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (151249654..151287018)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene calcium voltage-gated channel subunit alpha1 C Neighboring gene uncharacterized LOC134486627 Neighboring gene uncharacterized LOC134486628 Neighboring gene calcium voltage-gated channel auxiliary subunit alpha2delta 4 Neighboring gene uncharacterized LOC134486630 Neighboring gene leucine-rich repeats and transmembrane domains 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The role of disordered protein regions in the assembly of decapping complexes and RNP granules. Jonas S, et al. Genes Dev, 2013 Dec 15. PMID 24352420, Free PMC Article
    2. MicroRNA-23a promotes myelination in the central nervous system. Lin ST, et al. Proc Natl Acad Sci U S A, 2013 Oct 22. PMID 24101522, Free PMC Article
    3. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables enzyme activator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in cellular response to interleukin-17 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in deadenylation-independent decapping of nuclear-transcribed mRNA IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein localization to P-body ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in P-body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    mRNA-decapping enzyme 1B
    Names
    DCP1 decapping enzyme homolog b
    XP_003749869.1
    XP_008761494.1
    XP_038964972.1
    XP_063142924.1
    XP_575654.3

    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_001431840.1 → NP_001418769.1  mRNA-decapping enzyme 1B isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A6IL78, D3ZZJ7

    2. NM_001431841.1 → NP_001418770.1  mRNA-decapping enzyme 1B isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004

    3. NM_001431842.1 → NP_001418771.1  mRNA-decapping enzyme 1B isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004

    4. NM_001431843.1 → NP_001418772.1  mRNA-decapping enzyme 1B isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004

    5. NM_001431844.1 → NP_001418773.1  mRNA-decapping enzyme 1B isoform 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      154030181..154068038
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008763272.4 → XP_008761494.1  mRNA-decapping enzyme 1B isoform X5

      See identical proteins and their annotated locations for XP_008761494.1

      Conserved Domains (2) summary
      cd09804
      Location:16 → 131
      Dcp1; mRNA decapping enzyme 1 (Dcp1)
      pfam16741
      Location:562 → 603
      mRNA_decap_C; mRNA-decapping enzyme C-terminus

    2. XM_575654.9 → XP_575654.3  mRNA-decapping enzyme 1B isoform X1

      Related
      ENSRNOP00000009832.7, ENSRNOT00000009832.9
      Conserved Domains (3) summary
      cd09804
      Location:16 → 131
      Dcp1; mRNA decapping enzyme 1 (Dcp1)
      PHA03247
      Location:179 → 430
      PHA03247; large tegument protein UL36; Provisional
      pfam16741
      Location:539 → 580
      mRNA_decap_C; mRNA-decapping enzyme C-terminus

    3. XM_003749821.6 → XP_003749869.1  mRNA-decapping enzyme 1B isoform X2

      Conserved Domains (2) summary
      cd09804
      Location:16 → 131
      Dcp1; mRNA decapping enzyme 1 (Dcp1)
      pfam16741
      Location:506 → 547
      mRNA_decap_C; mRNA-decapping enzyme C-terminus

    4. XM_039109044.2 → XP_038964972.1  mRNA-decapping enzyme 1B isoform X4

      Conserved Domains (1) summary
      pfam16741
      Location:368 → 409
      mRNA_decap_C; mRNA-decapping enzyme C-terminus

    5. XM_063286854.1 → XP_063142924.1  mRNA-decapping enzyme 1B isoform X3

    Nucleotide Protein Strain
    Heading Accession and Version

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