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

Gene ID: 324554, updated on 11-Apr-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' exonuclease activity; RNA binding activity; and endoribonuclease activity. Predicted to be involved in mRNA 3'-end processing by stem-loop binding activity and cleavage and mRNA polyadenylation. 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, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 20
Exon count:
18
Annotation release Status Assembly Chr Location
106 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: Danio rerio Annotation Release 106 details...Open this link in a new tab

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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