FB2026_02 , released June 18, 2026
Gene: Dmel\ncm
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General Information
Symbol
Dmel\ncm
Species
D. melanogaster
Name
nucampholin
Annotation Symbol
CG12750
Feature Type
protein_coding_gene
FlyBase ID
FBgn0086707
Gene Model Status
Current
Stock Availability
11 publicly available
Gene Summary
nucampholin (ncm) encodes a protein that is predicted to be an essential component of the spliceosome, implicated in regulation of pre-mRNA splicing and assembly of the exon junction complex. [Date last reviewed: 2019-05-16] (FlyBase Gene Snapshot)
All Summaries
Key Links
Genomic Location
Cytogenetic map
36F5-36F5
Sequence location
Recombination map
2-53
RefSeq locus
NT_033779 REGION:18444507..18448957
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 (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
enables protein binding
inferred from physical interaction with UniProtKB:Q9VHS8
(Barbosa et al., 2012)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
enables RNA binding
inferred from sequence or structural similarity with UniProtKB:Q9HCG8
(Gene Ontology Curators, 2002-)
inferred from electronic annotation with InterPro:IPR003890
(InterPro Project Members, 2004-)
inferred from biological aspect of ancestor with PANTHER:PTN000427685
(GO Reference Genome Project, 2011-)
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 splicing, via spliceosome
inferred from biological aspect of ancestor with PANTHER:PTN000427686
(GO Reference Genome Project, 2011-)
Cellular Component (3 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
part_of catalytic step 2 spliceosome
inferred from biological aspect of ancestor with PANTHER:PTN000427686
(GO Reference Genome Project, 2011-)
located_in nuclear speck
inferred from sequence or structural similarity with UniProtKB:Q9HCG8
(Gene Ontology Curators, 2002-)
part_of spliceosomal complex
inferred from sequence or structural similarity with UniProtKB:Q9HCG8
(Gene Ontology Curators, 2002-)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the CWC22 family. (Q9VJ87)
Protein Signatures (InterPro)
Summaries
Gene Snapshot
nucampholin (ncm) encodes a protein that is predicted to be an essential component of the spliceosome, implicated in regulation of pre-mRNA splicing and assembly of the exon junction complex. [Date last reviewed: 2019-05-16]
Gene Group (FlyBase)
SPLICEOSOME COMPLEX C -
Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. Complex B undergoes a number of structural rearrangements and U4 and U1 snRNPs dissociate to generate complex C, the catalytic spliceosome. (Adapted from PMID:24452469 and PMID:23118483).
SPLICEOSOME COMPLEX P -
Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. Complex P, the post-spliceosomal complex, is formed after the catalytic removal of the intron by complex C. Complex P contains the lariat intron and spliced exons. (Adapted from PMID:24452469 and PMID:23118483).
Protein Function (UniProtKB)
Required for pre-mRNA splicing and for exon-junction complex (EJC) assembly. Hinders eIF4AIII from non-specifically binding RNA and escorts it to the splicing machinery to promote EJC assembly on mature mRNAs.
(UniProt, Q9VJ87)
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\ncm 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 Q9VJ87)

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

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.44

Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
ncm-RA
FBtr0081088
NM_136033
4231
1330
Additional Transcript Data and Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
UniProt
RefSeq ID
GenBank
ncm-PA
FBpp0080638
151.6
1330
10.04
Q9VJ87
NP_609877
AAF53667
Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)

Component of the spliceosome C complex (By similarity). Interacts with eIF4AIII (PubMed:22961380).

(UniProt, Q9VJ87)
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\ncm 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).

-0.53

Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 7 -- 8
antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
posterior endoderm
(Fisher et al., 2012)
ventral ectoderm
(Fisher et al., 2012)
embryonic stage 9 -- 10
organism | faint | ubiquitous
(Fisher et al., 2012)
embryonic stage 11 -- 12
organism | faint | ubiquitous
(Fisher et al., 2012)
salivary gland body primordium

Comment: reported as salivary gland primordium

(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic/larval salivary gland
(Fisher et al., 2012)
organism | faint | ubiquitous
(Fisher et al., 2012)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
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\ncm 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
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
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
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 1-3
  • Stages(s) 4-6
  • Stages(s) 7-8
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 12 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 6 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of ncm
Transgenic constructs containing regulatory region of ncm
Aberrations (Deficiencies and Duplications) ( 11 )
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) (4)
Hsap\CWC22
12 of 14
Yes
Yes
Hsap\NOM1
2 of 14
No
No
Hsap\FSIP2
1 of 14
No
Yes
Hsap\PRPF38B
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) (4)
Rnor\Cwc22
11 of 14
Yes
Yes
Rnor\LOC500684
10 of 14
No
Yes
Rnor\Nom1
2 of 14
No
No
Rnor\Prpf38b
1 of 14
No
No
Mus musculus (laboratory mouse) (11)
Mmus\Cwc22
12 of 14
Yes
Yes
Mmus\Gm13691
11 of 14
No
Yes
Mmus\Gm13695
11 of 14
No
Yes
Mmus\Gm13693
10 of 14
No
Yes
Mmus\Gm13694
10 of 14
No
Yes
Mmus\Gm13696
10 of 14
No
Yes
Mmus\Gm13697
10 of 14
No
Yes
Mmus\Gm13698
10 of 14
No
Yes
Mmus\Nom1
2 of 14
No
No
Mmus\Gm11639
1 of 14
No
No
Mmus\Prpf38b
1 of 14
No
No
Xenopus tropicalis (Western clawed frog) (7)
Xtro\cwc22
9 of 13
Yes
Yes
Xtro\nom1
2 of 13
No
No
Xtro\dap
1 of 13
No
No
Xtro\f2r
1 of 13
No
Yes
Xtro\mga
1 of 13
No
No
Xtro\otogl2
1 of 13
No
No
Xtro\prpf38b
1 of 13
No
No
Danio rerio (Zebrafish) (5)
Drer\cwc22
12 of 14
Yes
Yes
Drer\nom1
2 of 14
No
No
Drer\nipblb
1 of 14
No
No
Drer\prpf38b
1 of 14
No
No
Drer\rbmx2
1 of 14
No
No
Caenorhabditis elegans (Nematode, roundworm) (4)
Cele\let-858
11 of 14
Yes
Yes
Cele\Y52B11A.10
2 of 14
No
No
Cele\F56A11.6
1 of 14
No
Yes
Cele\Y108G3AL.2
1 of 14
No
No
Anopheles gambiae (African malaria mosquito) (3)
Agam\AgaP_AGAP007874
10 of 12
Yes
Yes
Agam\AgaP_AGAP011285
2 of 12
No
No
Agam\AgaP_AGAP004698
1 of 12
No
No
Arabidopsis thaliana (thale-cress) (4)
Atha\AT1G80930
11 of 13
Yes
Yes
Atha\AT1G52325
2 of 13
No
Yes
Atha\AT5G17930
2 of 13
No
No
Atha\ATSRL1
1 of 13
No
No
Saccharomyces cerevisiae (Brewer's yeast) (2)
Scer\CWC22
12 of 13
Yes
Yes
Scer\SGD1
2 of 13
No
No
Schizosaccharomyces pombe (Fission yeast) (2)
Spom\cwf22
11 of 12
Yes
Yes
Spom\SPAC24C9.11
2 of 12
No
No
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:ncm. 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)
CG9004
3 of 13
CG13185
1 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?
    CWC22; CWC22 spliceosome associated protein
    12 of 14
    615186
        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
        aos
        enhanceable
        ncm
        (Coelho et al., 2005)
        Pi3K92E
        enhanceable
        ncm
        (Coelho et al., 2005)
        External Data
        Subunit Structure (UniProtKB)
        Component of the spliceosome C complex (By similarity). Interacts with eIF4AIII (PubMed:22961380).
        (UniProt, Q9VJ87 )
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        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
        Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
        Class of Gene
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        2L
        Recombination map
        2-53
        Cytogenetic map
        36F5-36F5
        Sequence location
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        36F5-36F5
        Limits computationally determined from genome sequence between P{lacW}Aac11k06710 and P{EP}CG10413EP2164
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        36E1-36E1
        (Oh et al., 2003)
        Experimentally Determined Recombination Data
        Location

        2-53

        (FlyBase, 2016)

        2-53.3

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (11)
        Genomic Clones (28)
        cDNA Clones (29)
         

        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

              S2 cells treated with dsRNA generated against this gene show reduced phagocytosis of Candida albicans compared to untreated cells.

              (Stroschein-Stevenson et al., 2006)

              Identification: as a complementation group whose members dominantly modify the small wing phenotype caused by expression of Pi3K92ED954A.Scer\UAS.T:Hsap\MYC under the control of Scer\GAL4Bx-MS1096. 2 alleles of ncm have been recovered.

              (Coelho et al., 2005)

              4 alleles of ncm recovered in a P-insertion screen.

              (Oh et al., 2003)
              Relationship to Other Genes
              Source for database merge of

              Source for merge of: CG12750 l(2)SH0931

              (Coelho et al., 2005)
              Additional comments
              Nomenclature History
              Source for database identify of

              Source for identity of: ncm CG12750 l(2)SH0931

              (Coelho et al., 2005)
              Nomenclature comments
              Etymology
              Synonyms and Secondary IDs (10)
              Datasets (0)
              Study focus (0)
              Experimental Role
              Project
              Project Type
              Title
              Study result (0)
              Result
              Result Type
              Title
              External Crossreferences and Linkouts ( 43 )
              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.
              BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
              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
              BioGRID - A database of protein and genetic interactions.
              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.
              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)
              MIST (protein-protein) - An integrated Molecular Interaction Database
              Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
              References (51)