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    cpsf3 cleavage and polyadenylation specific factor 3 [ Danio rerio (zebrafish) ]

    Gene ID: 324554, updated on 2-Nov-2024

    Summary

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    Official Symbol
    cpsf3provided by ZNC
    Official Full Name
    cleavage and polyadenylation specific factor 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-3275
    See related
    Ensembl:ENSDARG00000027649 AllianceGenome:ZFIN:ZDB-GENE-030131-3275
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    wu:fc32f10; zgc:101655; si:dkey-81b15.1
    Summary
    Predicted to enable 5'-3' RNA exonuclease activity; RNA binding activity; and RNA endonuclease activity. Predicted to be involved in mRNA 3'-end processing by stem-loop binding activity and cleavage. Predicted to act upstream of or within mRNA processing. Predicted to be located in nucleus. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human CPSF3 (cleavage and polyadenylation specific factor 3). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See cpsf3 in Genome Data Viewer
    Location:
    chromosome: 20
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (29619894..29633452, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (29717015..29730573, complement)

    Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide a Neighboring gene ADAM metallopeptidase domain 17b Neighboring gene ArfGAP with SH3 domain, ankyrin repeat and PH domain 2b Neighboring gene E2F transcription factor 6

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Genetic compensation triggered by actin mutation prevents the muscle damage caused by loss of actin protein. Sztal TE, et al. PLoS Genet, 2018 Feb. PMID 29420541, Free PMC Article
    2. TIF1gamma controls erythroid cell fate by regulating transcription elongation. Bai X, et al. Cell, 2010 Jul 9. PMID 20603019, Free PMC Article
    3. New classes of mind bomb-interacting proteins identified from yeast two-hybrid screens. Tseng LC, et al. PLoS One, 2014. PMID 24714733, Free PMC Article
    4. Identification of 315 genes essential for early zebrafish development. Amsterdam A, et al. Proc Natl Acad Sci U S A, 2004 Aug 31. PMID 15256591, Free PMC Article
    5. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC101655

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables 5'-3' RNA exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA endonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA 3'-end processing by stem-loop binding and cleavage IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of mRNA cleavage and polyadenylation specificity factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    cleavage and polyadenylation specificity factor subunit 3
    Names
    cleavage and polyadenylation specificity factor 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_001003836.1 → NP_001003836.1  cleavage and polyadenylation specificity factor subunit 3

      See identical proteins and their annotated locations for NP_001003836.1

      Status: PROVISIONAL

      Source sequence(s)
      AY648793
      UniProtKB/TrEMBL
      Q6DRG6
      Related
      ENSDARP00000040291.5, ENSDART00000040292.6
      Conserved Domains (5) summary
      smart01027
      Location:253 → 374
      Beta-Casp; Beta-Casp domain
      COG1236
      Location:21 → 461
      YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
      pfam07521
      Location:387 → 427
      RMMBL; RNA-metabolizing metallo-beta-lactamase
      pfam11718
      Location:485 → 638
      CPSF73-100_C; Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term
      cd16292
      Location:19 → 212
      CPSF3-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 3 and related proteins; MBL-fold metallo-hydrolase domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007131.7 Reference GRCz11 Primary Assembly

      Range
      29619894..29633452 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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