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    Ncbp2 nuclear cap binding protein subunit 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 689116, updated on 5-Mar-2024

    Summary

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    Symbol
    Ncbp2provided by RGD
    Full Name
    nuclear cap binding protein subunit 2provided by RGD
    Primary source
    RGD:1596188
    See related
    AllianceGenome:RGD:1596188
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Pigz; CBP20
    Summary
    Enables RNA 7-methylguanosine cap binding activity. Predicted to be involved in several processes, including mRNA metabolic process; positive regulation of mRNA 3'-end processing; and snRNA export from nucleus. Located in nucleus. Part of nuclear cap binding activity complex. Orthologous to human NCBP2 (nuclear cap binding protein subunit 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 232.2), Thymus (RPKM 223.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    11q22
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (82326002..82334839, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (68821026..68829863, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (72071838..72103087, complement)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene p21 (RAC1) activated kinase 2 Neighboring gene SUMO specific peptidase 5 Neighboring gene NCBP2 antisense 2 (head to head) Neighboring gene uncharacterized LOC108352349 Neighboring gene phosphatidylinositol glycan anchor biosynthesis, class Z

    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. A nuclear cap-binding complex binds Balbiani ring pre-mRNA cotranscriptionally and accompanies the ribonucleoprotein particle during nuclear export. Visa N, et al. J Cell Biol, 1996 Apr. PMID 8601613, Free PMC Article
    2. DcpS scavenger decapping enzyme can modulate pre-mRNA splicing. Shen V, et al. RNA, 2008 Jun. PMID 18426921, Free PMC Article
    3. Failsafe nonsense-mediated mRNA decay does not detectably target eIF4E-bound mRNA. Matsuda D, et al. Nat Struct Mol Biol, 2007 Oct. PMID 17873884
    4. Structural basis of m7GpppG binding to the nuclear cap-binding protein complex. Calero G, et al. Nat Struct Biol, 2002 Dec. PMID 12434151
    5. Evidence for a pioneer round of mRNA translation: mRNAs subject to nonsense-mediated decay in mammalian cells are bound by CBP80 and CBP20. Ishigaki Y, et al. Cell, 2001 Sep 7. PMID 11551508

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA 7-methylguanosine cap binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA 7-methylguanosine cap binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA 7-methylguanosine cap binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA 7-methylguanosine cap binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    NOT enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA cap binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA cap binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables glycosyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables snRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables snRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables snRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA splicing ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in histone mRNA metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in histone mRNA metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA cis splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA cis splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA cis splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in mRNA export from nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA export from nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of RNA export from nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of mRNA 3'-end processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of mRNA 3'-end processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of translational initiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of translational initiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulatory ncRNA-mediated gene silencing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in snRNA export from nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of RNA cap binding complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of nuclear cap binding complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of nuclear cap binding complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of nuclear cap binding complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of nuclear cap binding complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    nuclear cap-binding protein subunit 2
    Names
    20 kDa nuclear cap-binding protein
    NCBP 20 kDa subunit
    nuclear cap-binding protein subunit 2-like
    phosphatidylinositol glycan anchor biosynthesis, class Z

    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_001109525.1 → NP_001102995.1  nuclear cap-binding protein subunit 2

      See identical proteins and their annotated locations for NP_001102995.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473967
      UniProtKB/Swiss-Prot
      B1WC40
      UniProtKB/TrEMBL
      A6IRU8, A6IRU9
      Conserved Domains (1) summary
      cd12240
      Location:42 → 119
      RRM_NCBP2; RNA recognition motif (RRM) found in nuclear cap-binding protein subunit 2 (CBP20) and similar proteins

    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_086029.1 Reference GRCr8

      Range
      82326002..82334839 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    B1WC40.1 GenPept UniProtKB/Swiss-Prot:B1WC40

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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