FB2024_02 , released April 23, 2024
Gene: Dmel\CG42566
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General Information
Symbol
Dmel\CG42566
Species
D. melanogaster
Name
Annotation Symbol
CG42566
Feature Type
protein_coding_gene
FlyBase ID
FBgn0260768
Gene Model Status
Current
Stock Availability
6 publicly available
Gene Summary
Contribute a Gene Snapshot for this gene.
All Summaries
Key Links
Genomic Location
Cytogenetic map
58F4-58F4
Sequence location
Recombination map
2-100
RefSeq locus
NT_033778 REGION:22661934..22663241
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 (0 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Cellular Component (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\CG42566 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 A8DYM6)

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

Mutation in sequenced strain: frameshift (-2).

Gene model reviewed during 5.55

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

Sequence Ontology: Class of Gene
nuclear_gene
(FlyBase Genome Annotators, 2008)
protein_coding_gene
(FlyBase Genome Annotators, 2008)
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
CG42566-RA
FBtr0301270
NM_001103951
555
77
CG42566-RB
FBtr0344753
NM_001299811
873
77
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
CG42566-PA
FBpp0290485
8.6
77
7.84
A8DYM6
NP_001097421
ABV53888
CG42566-PB
FBpp0311085
8.6
77
7.84
A8DYM6
NP_001286740
AHN56535
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

77 aa isoforms: CG42566-PA, CG42566-PB
Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
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\CG42566 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).

-0.58

Transcript Expression
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\CG42566 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
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 3 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of CG42566
Transgenic constructs containing regulatory region of CG42566
Aberrations (Deficiencies and Duplications) ( 0 )
Inferred from experimentation ( 0 )
Inferred from location ( 0 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Phenotype manifest in
Allele
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\LITAFD
5 of 14
Yes
No
Hsap\LITAF
4 of 14
No
No
1  
Hsap\CDIP1
3 of 14
No
No
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\Litafd
4 of 14
Yes
No
Rnor\Litaf
4 of 14
Yes
No
Rnor\Cdip1
3 of 14
No
No
Mus musculus (laboratory mouse) (3)
Mmus\Gm5767
5 of 14
Yes
No
Mmus\Cdip1
3 of 14
No
No
Mmus\Litaf
3 of 14
No
No
Xenopus tropicalis (Western clawed frog) (5)
Xtro\litaf
4 of 13
Yes
No
Xtro\LOC100498592
4 of 13
Yes
No
Xtro\LOC101730868
4 of 13
Yes
No
Xtro\cdip1
3 of 13
No
Yes
Xtro\litafd
3 of 13
No
No
Danio rerio (Zebrafish) (8)
Drer\litaf
4 of 14
Yes
No
Drer\LOC103911283
4 of 14
Yes
No
Drer\si:ch211-157c3.4
4 of 14
Yes
No
Drer\si:ch211-202h22.7
4 of 14
Yes
No
Drer\si:ch211-202h22.9
4 of 14
Yes
No
Drer\cdip1
3 of 14
No
No
Drer\si:ch211-202h22.8
3 of 14
No
No
Drer\si:dkeyp-75b4.8
3 of 14
No
No
Caenorhabditis elegans (Nematode, roundworm) (13)
Cele\Y87G2A.18
6 of 14
Yes
Yes
Cele\F16F9.1
5 of 14
No
No
Cele\F36G3.3
4 of 14
No
No
Cele\Y87G2A.19
4 of 14
No
No
Cele\B0348.1
2 of 14
No
No
Cele\B0348.2
2 of 14
No
No
Cele\C08E8.1
2 of 14
No
No
Cele\Y22D7AL.15
2 of 14
No
No
Cele\Y37D8A.6
2 of 14
No
No
Cele\Y37D8A.8
2 of 14
No
No
Cele\Y37D8A.26
2 of 14
No
No
Cele\Y40H7A.11
2 of 14
No
No
Cele\Y41C4A.11
2 of 14
No
No
Anopheles gambiae (African malaria mosquito) (5)
Agam\AgaP_AGAP009052
5 of 12
Yes
No
Agam\AgaP_AGAP009053
5 of 12
Yes
No
Agam\AgaP_AGAP009054
5 of 12
Yes
No
Agam\AgaP_AGAP009051
4 of 12
No
No
Agam\AgaP_AGAP004928
3 of 12
No
No
Arabidopsis thaliana (thale-cress) (1)
Atha\GILP
2 of 13
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (0)
Schizosaccharomyces pombe (Fission yeast) (0)
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:CG42566. 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) (12)
CG4250
6 of 13
CG13510
6 of 13
CG13516
5 of 13
CG30269
5 of 13
CG30273
5 of 13
CG13511
4 of 13
CG32280
4 of 13
CG12645
3 of 13
CG13559
3 of 13
CG42565
3 of 13
CG30196
1 of 13
CG34445
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?
    LITAFD; LITAF domain containing
    5 of 14
        LITAF; lipopolysaccharide induced TNF factor
        4 of 14
        603795
         
        CDIP1; cell death inducing p53 target 1
        3 of 14
        610503
            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
            esyN Network Diagram
            Interactions Browser
            Summary of Genetic Interactions
            esyN Network Diagram
            Starting gene(s)
            Interaction type
            Interacting gene(s)
            Reference
            Starting gene(s)
            Interaction type
            Interacting gene(s)
            Reference
            External Data
            Linkouts
            DroID - A comprehensive database of gene and protein interactions.
            Pathways
            Signaling Pathways (FlyBase)
            Metabolic Pathways
            External Data
            Linkouts
            KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
            Genomic Location and Detailed Mapping Data
            Chromosome (arm)
            2R
            Recombination map
            2-100
            Cytogenetic map
            58F4-58F4
            Sequence location
            FlyBase Computed Cytological Location
            Cytogenetic map
            Evidence for location
            58F4-58F4
            Experimentally Determined Cytological Location
            Cytogenetic map
            Notes
            References
            Experimentally Determined Recombination Data
            Location

            2-100

            (FlyBase, 2016)

            2-105.5

            (Comeron et al., 2012)
            Left of (cM)
            Right of (cM)
            Notes
            Stocks and Reagents
            Stocks (6)
            Genomic Clones (16)
             

            Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

            cDNA Clones (5)
             

            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
                  Relationship to Other Genes
                  Source for database merge of
                  Additional comments

                  Source for split of: CG13512

                  (FlyBase Genome Annotators, 2008)

                  Annotation CG13512 split into CG42565 and CG42566 in release 5.16 of the genome annotation.

                  (FlyBase Genome Annotators, 2008)
                  Nomenclature History
                  Source for database identify of
                  Nomenclature comments
                  Etymology
                  Synonyms and Secondary IDs (2)
                  Datasets (0)
                  Study focus (0)
                  Experimental Role
                  Project
                  Project Type
                  Title
                  Study result (0)
                  Result
                  Result Type
                  Title
                  External Crossreferences and Linkouts ( 24 )
                  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 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/TrEMBL - Automatically annotated and unreviewed 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
                  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.
                  FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
                  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.
                  References (15)