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cpsf1 cleavage and polyadenylation specific factor 1 [ Danio rerio (zebrafish) ]

Gene ID: 432372, updated on 11-Apr-2024

Summary

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Official Symbol
cpsf1provided by ZNC
Official Full Name
cleavage and polyadenylation specific factor 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-040709-2
See related
Ensembl:ENSDARG00000034178 AllianceGenome:ZFIN:ZDB-GENE-040709-2
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:fb24c01
Summary
Predicted to enable nucleic acid binding activity. Acts upstream of or within definitive hemopoiesis; mRNA polyadenylation; and retinal ganglion cell axon guidance. Predicted to be located in nucleoplasm. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Predicted to be active in nucleus. Is expressed in brain; gut; head; and pectoral fin. Human ortholog(s) of this gene implicated in myopia. Orthologous to human CPSF1 (cleavage and polyadenylation specific factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 19
Exon count:
38
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (11897631..11950455, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (11979289..12032094, complement)

Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1 Neighboring gene aarF domain containing kinase 5 Neighboring gene poly(ADP-ribose) polymerase family member 10 Neighboring gene RNA polymerase II, I and III subunit K

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. CPSF1 mutations are associated with early-onset high myopia and involved in retinal ganglion cell axon projection. Ouyang J, et al. Hum Mol Genet, 2019 Jun 15. PMID 30689892, Free PMC Article
  2. cpsf1 is required for definitive HSC survival in zebrafish. Bolli N, et al. Blood, 2011 Apr 14. PMID 21330472, Free PMC Article
  3. Single-cell transcriptional analysis of normal, aberrant, and malignant hematopoiesis in zebrafish. Moore FE, et al. J Exp Med, 2016 May 30. PMID 27139488, 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. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

See all (7) 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 ZFIN

Function Evidence Code Pubs
enables NAD+ ADP-ribosyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within cytosolic mRNA polyadenylation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within definitive hemopoiesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within retinal ganglion cell axon guidance IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of mRNA cleavage and polyadenylation specificity factor complex IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus 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 1
NP_001108153.2
XP_005159641.1

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_001114681.2 → NP_001108153.2  cleavage and polyadenylation specificity factor subunit 1

    Status: PROVISIONAL

    Source sequence(s)
    CU467825
    UniProtKB/Swiss-Prot
    A0A0R4IC37
    UniProtKB/TrEMBL
    A0A8M1NHR0
    Related
    ENSDARP00000130523.2, ENSDART00000163478.2
    Conserved Domains (3) summary
    COG5161
    Location:1 → 1443
    SFT1; Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]
    pfam03178
    Location:1079 → 1414
    CPSF_A; CPSF A subunit region
    pfam10433
    Location:92 → 674
    MMS1_N; Mono-functional DNA-alkylating methyl methanesulfonate N-term

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_007130.7 Reference GRCz11 Primary Assembly

    Range
    11897631..11950455 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005159584.4 → XP_005159641.1  cleavage and polyadenylation specificity factor subunit 1 isoform X1

    UniProtKB/Swiss-Prot
    A0A0R4IC37
    UniProtKB/TrEMBL
    A0A8M2B658, F6NXE7
    Related
    ENSDARP00000023736.9, ENSDART00000024861.11
    Conserved Domains (3) summary
    COG5161
    Location:1 → 1442
    SFT1; Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]
    pfam03178
    Location:1078 → 1413
    CPSF_A; CPSF A subunit region
    pfam10433
    Location:92 → 673
    MMS1_N; Mono-functional DNA-alkylating methyl methanesulfonate N-term
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A0A0R4IC37.2 GenPept UniProtKB/Swiss-Prot:A0A0R4IC37

Gene LinkOut

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