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cpsf2 cleavage and polyadenylation specific factor 2 [ Danio rerio (zebrafish) ]

Gene ID: 436657, updated on 11-Apr-2024

Summary

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Official Symbol
cpsf2provided by ZNC
Official Full Name
cleavage and polyadenylation specific factor 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-040718-79
See related
Ensembl:ENSDARG00000028971 AllianceGenome:ZFIN:ZDB-GENE-040718-79
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
zgc:92484
Summary
Predicted to enable RNA binding activity. Predicted to be involved in mRNA 3'-end processing by stem-loop binding activity and cleavage; mRNA polyadenylation; and pre-mRNA cleavage required for polyadenylation. Predicted to act upstream of or within mRNA cleavage and mRNA processing. Predicted to be located in nucleus. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human CPSF2 (cleavage and polyadenylation specific factor 2). [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:
15
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (50052030..50086095)
105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (50249916..50283091)

Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene ribosomal oxygenase 1 Neighboring gene NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 Neighboring gene solute carrier family 24 member 4b Neighboring gene transmembrane protein 121Ab

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. TIF1gamma controls erythroid cell fate by regulating transcription elongation. Bai X, et al. Cell, 2010 Jul 9. PMID 20603019, Free PMC Article
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  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

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
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
  
part_of mRNA cleavage and polyadenylation specificity factor complex IEA
Inferred from Electronic Annotation
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 2

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_001002384.1 → NP_001002384.1  cleavage and polyadenylation specificity factor subunit 2

    See identical proteins and their annotated locations for NP_001002384.1

    Status: PROVISIONAL

    Source sequence(s)
    BC076029
    UniProtKB/TrEMBL
    Q6DHE5
    Related
    ENSDARP00000047211.4, ENSDART00000047212.6
    Conserved Domains (5) summary
    smart01027
    Location:243 → 368
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:5 → 430
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:528 → 567
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    pfam13299
    Location:609 → 787
    CPSF100_C; Cleavage and polyadenylation factor 2 C-terminal
    cd16293
    Location:7 → 204
    CPSF2-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 2 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
    50052030..50086095
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017352464.2 → XP_017207953.1  cleavage and polyadenylation specificity factor subunit 2 isoform X1

    UniProtKB/TrEMBL
    A0A8M6YWL8, F1QVV4
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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