FB2026_01 , released March 12, 2026
FB2026_01 , released March 12, 2026
Gene: Dmel\Cpsf160
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General Information
Symbol
Dmel\Cpsf160
Species
D. melanogaster
Name
Cleavage and polyadenylation specificity factor 160
Annotation Symbol
CG10110
Feature Type
protein_coding_gene
FlyBase ID
FBgn0024698
Gene Model Status
Current
Stock Availability
7 publicly available
Gene Summary
Component of the cleavage and polyadenylation specificity factor (CPSF) complex that plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction (By similarity). (UniProt, Q9V726)
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

cpsf, cleavage and polyadenylation specificity factor

Key Links
Genomic Location
Cytogenetic map
51A4-51A4
Sequence location
Recombination map
2-71
RefSeq locus
NT_033778 REGION:14497347..14503488
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
Gene Ontology (GO) Annotations (6 terms)
Molecular Function (3 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
enables myosin binding
inferred from physical interaction with FLYBASE:Myo10A; FB:FBgn0263705
(Liu et al., 2008)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
enables mRNA 3'-UTR AU-rich region binding
inferred from sequence or structural similarity with UniProtKB:Q10570
(Gene Ontology Curators, 2002-)
enables nucleic acid binding
inferred from electronic annotation with InterPro:IPR004871
(InterPro Project Members, 2004-)
Biological Process (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
involved_in mRNA 3'-end processing
traceable author statement
(Salinas et al., 1998)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
part_of mRNA cleavage and polyadenylation specificity factor complex
inferred from sequence or structural similarity with UniProtKB:Q10570
(Mount and Salz, 2000, Salinas et al., 1998)
inferred from biological aspect of ancestor with PANTHER:PTN000068526
(GO Reference Genome Project, 2011-)
is_active_in nucleus
inferred from biological aspect of ancestor with PANTHER:PTN000068362
(GO Reference Genome Project, 2011-)
located_in nucleus
inferred from electronic annotation with InterPro:IPR004871
(InterPro Project Members, 2004-)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the CPSF1 family. (Q9V726)
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
HISTONE PRE-MRNA CLEAVAGE COMPLEX -
Histone cleavage complex includes endonucleases and polyadenylation factors involved in processing of histone pre-mRNA. (Adapted from FBrf0223323 and PMID:23071092).
POLYADENYLATION FACTORS -
Polyadenylation factors associate with snRNPs, cleavage complexes and other factors to mediate the 3' end processing of pre-mRNA. (Adapted from FBrf0223323).
Protein Function (UniProtKB)
Component of the cleavage and polyadenylation specificity factor (CPSF) complex that plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction (By similarity).
(UniProt, Q9V726)
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
2

Please see the JBrowse view of Dmel\Cpsf160 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Structure
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q9V726)

If you don't see a structure in the viewer, refresh your browser.
Model Confidence:
  • Very high (pLDDT > 90)
  • Confident (90 > pLDDT > 70)
  • Low (70 > pLDDT > 50)
  • Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures
Crossreferences
Comments on Gene Model

Gene model reviewed during 5.43

Gene model reviewed during 5.50

Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Cpsf160-RA
FBtr0089258
NM_206111
4845
1455
Cpsf160-RB
FBtr0089257
NM_166056
4504
1420
Additional Transcript Data and Comments
Reported size (kB)

4.4 (northern blot)

(Salinas et al., 1998)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
UniProt
RefSeq ID
GenBank
Cpsf160-PA
FBpp0089163
164.7
1455
6.12
Q9V726
NP_995833
AAF58240
Cpsf160-PB
FBpp0088317
160.7
1420
6.08
NP_725397
AAM68553
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)

146 (kD predicted)

(Salinas et al., 1998)
Comments
External Data
Subunit Structure (UniProtKB)

Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of at least Clp, Cpsf73, Cpsf100 and Cpsf160.

(UniProt, Q9V726)
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Cpsf160 using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.41

Transcript Expression
northern blot
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage -- pupal stage
(Salinas et al., 1998)
adult stage | female
(Salinas et al., 1998)
adult stage | male
(Salinas et al., 1998)
Additional Descriptive Data

Cpsf160 is expressed at all stages of development with the highest levels in embryos.

(Salinas et al., 1998)
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
(Aradska et al., 2015)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Cpsf160 in JBrowse
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 8 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 5 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Cpsf160
Transgenic constructs containing regulatory region of Cpsf160
Aberrations (Deficiencies and Duplications) ( 7 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (3)
Hsap\CPSF1
14 of 14
Yes
Yes
Hsap\DDB1
1 of 14
No
No
Hsap\SF3B3
1 of 14
No
No
1  
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (3)
Rnor\Cpsf1
14 of 14
Yes
Yes
Rnor\Ddb1
1 of 14
No
No
Rnor\Sf3b3
1 of 14
No
No
Mus musculus (laboratory mouse) (3)
Mmus\Cpsf1
13 of 14
Yes
Yes
Mmus\Ddb1
1 of 14
No
No
Mmus\Sf3b3
1 of 14
No
No
Xenopus tropicalis (Western clawed frog) (3)
Xtro\cpsf1
7 of 13
Yes
Yes
Xtro\ddb1
1 of 13
No
No
Xtro\sf3b3
1 of 13
No
No
Danio rerio (Zebrafish) (3)
Drer\cpsf1
13 of 14
Yes
Yes
Drer\ddb1
1 of 14
No
No
Drer\sf3b3
1 of 14
No
No
Caenorhabditis elegans (Nematode, roundworm) (3)
Cele\cpsf-1
13 of 14
Yes
Yes
Cele\ddb-1
1 of 14
No
No
Cele\teg-4
1 of 14
No
No
Anopheles gambiae (African malaria mosquito) (3)
Agam\AgaP_AGAP011340
12 of 12
Yes
Yes
Agam\AgaP_AGAP002472
1 of 12
No
No
Agam\AgaP_AGAP005549
1 of 12
No
No
Arabidopsis thaliana (thale-cress) (5)
Atha\CPSF160
13 of 13
Yes
Yes
Atha\DDB1A
1 of 13
No
No
Atha\DDB1B
1 of 13
No
No
Atha\SAP130a
1 of 13
No
No
Atha\SAP130b
1 of 13
No
No
Saccharomyces cerevisiae (Brewer's yeast) (2)
Scer\CFT1
11 of 13
Yes
Yes
Scer\RSE1
1 of 13
No
No
Schizosaccharomyces pombe (Fission yeast) (5)
Spom\cft1
11 of 12
Yes
Yes
Spom\ddb1
1 of 12
No
No
Spom\mms1
1 of 12
No
Yes
Spom\prp12
1 of 12
No
No
Spom\rik1
1 of 12
No
No
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:Cpsf160. Refer to their site for version information.
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v9.1)
Gene Symbol
Score
Source
Compara
Domainoid
eggNOG
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Drosophila melanogaster (Fruit fly) (2)
pic
3 of 13
Sf3b3
3 of 13
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 0 )
    Human Ortholog
    Disease
    Evidence
    References
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    CPSF1; cleavage and polyadenylation specific factor 1
    14 of 14
    606027
      Functional Complementation Data
      Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
      Interactions
      Summary of Physical Interactions
      Summary of Genetic Interactions
      Interaction Browsers
      View in FlyBase Interactions Browser   View in MIST tool (external link)
      Please look at the allele data for full details of the genetic interactions
      Starting gene(s)
      Interaction type
      Interacting gene(s)
      Reference
      Starting gene(s)
      Interaction type
      Interacting gene(s)
      Reference
      Atg1
      suppressible
      Cpsf160
      (Tang et al., 2018)
      Tsc1|gig
      suppressible
      Cpsf160
      (Tang et al., 2018)
      External Data
      Subunit Structure (UniProtKB)
      Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of at least Clp, Cpsf73, Cpsf100 and Cpsf160.
      (UniProt, Q9V726 )
      Linkouts
      DroID - A comprehensive database of gene and protein interactions.
      MIST (protein-protein) - An integrated Molecular Interaction Database
      Pathways
      Signaling Pathways (FlyBase)
      Metabolic Pathways
      FlyBase
      External Links
      External Data
      Linkouts
      KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
      Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
      Class of Gene
      Genomic Location and Detailed Mapping Data
      Chromosome (arm)
      2R
      Recombination map
      2-71
      Cytogenetic map
      51A4-51A4
      Sequence location
      FlyBase Computed Cytological Location
      Cytogenetic map
      Evidence for location
      51A4-51A4
      Limits computationally determined from genome sequence between P{PZ}Tfb106949&P{PZ}l(2)0356303563 and P{lacW}l(2)k16805k16805
      Experimentally Determined Cytological Location
      Cytogenetic map
      Notes
      References
      Experimentally Determined Recombination Data
      Location

      2-71

      (FlyBase, 2016)

      2-75.6

      (Comeron et al., 2012)
      Left of (cM)
      Right of (cM)
      Notes
      Stocks and Reagents
      Stocks (7)
      Genomic Clones (26)
      cDNA Clones (64)
       

      Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

      cDNA clones, fully sequenced
      BDGP DGC clones
      Other clones
        Drosophila Genomics Resource Center cDNA clones

        For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

        cDNA Clones, End Sequenced (ESTs)
        BDGP DGC clones
        Other clones
        RNAi and Array Information
        Linkouts
        DRSC - Results frm RNAi screens
        Antibody Information
        Laboratory Generated Antibodies
         
        Commercially Available Antibodies
         
        Cell Line Information
        Publicly Available Cell Lines
         
          Other Stable Cell Lines
           
            Other Comments

            Area matching Drosophila EST AA440345. This EST forms a 2293bp contig with ESTs AA201536, AA539993, AA942332, AA979174 and AA202096 and has sequence similarity to Human cleavage factor gene.

            (Davies, 2001.3.15)

            Transcription unit identified during molecular analysis of the AsxP1 insertion.

            (Salinas et al., 1998)

            Homozygous mutants die as embryos and exhibit a cuticle defect.

            (Salinas et al., 1998)

            Identification: Part of molecular analysis of Asx and AsxP1.

            (Sinclair et al., 1998)
            Relationship to Other Genes
            Source for database merge of

            Source for merge of: cpsf CG10110

            (FlyBase, 1996-)

            Source for merge of: cpsf anon-WO0118547.217

            (FlyBase, 1996-)
            Additional comments

            Source for merge of cpsf CG10110 was sequence comparison ( date:000815 ).

            (FlyBase, 1996-)

            Source for merge of cpsf anon-WO0118547.217 was sequence comparison ( date:051113 ).

            (FlyBase, 1996-)
            Nomenclature History
            Source for database identify of

            Source for identity of: cpsf Cpsf160

            (Wagner et al., 2007)
            Nomenclature comments
            Etymology
            Synonyms and Secondary IDs (12)
            Datasets (0)
            Study focus (0)
            Experimental Role
            Project
            Project Type
            Title
            Study result (0)
            Result
            Result Type
            Title
            External Crossreferences and Linkouts ( 51 )
            Sequence Crossreferences
            NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
            GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
            GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
            RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
            UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.
            UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
            Other crossreferences
            AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.
            DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
            EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
            FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
            FlyMine - An integrated database for Drosophila genomics
            InterPro - A database of protein families, domains and functional sites
            KEGG Genes - Molecular building blocks of life in the genomic space.
            MARRVEL_MODEL - MARRVEL (model organism gene)
            Linkouts
            Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
            DroID - A comprehensive database of gene and protein interactions.
            DRSC - Results frm RNAi screens
            Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
            FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
            FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
            Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
            Flygut - An atlas of the Drosophila adult midgut
            FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.
            iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
            KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
            MIST (protein-protein) - An integrated Molecular Interaction Database
            Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
            References (63)