FB2024_02 , released April 23, 2024
Gene: Dmel\CR40801
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General Information
Symbol
Dmel\CR40801
Species
D. melanogaster
Name
Annotation Symbol
CR40801
Feature Type
pseudogene
FlyBase ID
FBgn0085520
Gene Model Status
Current
Stock Availability
None publicly available
Gene Summary
Contribute a Gene Snapshot for this gene.
All Summaries
Key Links
Genomic Location
Cytogenetic map
Sequence location
Recombination map
RefSeq locus
NC_024512 REGION:3267088..3268196
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
Function
Gene Ontology (GO) Annotations (0 terms)
Molecular Function (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Cellular Component (0 terms)
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
    1
    Number of Unique Polypeptides
    0

    Please see the JBrowse view of Dmel\CR40801 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
    Experimentally Determined Structures
    Crossreferences
    Comments on Gene Model

    Gene model reviewed during 6.03

    Pseudogene similar to ade5; partial; transposed. One of multiple partial copies within a 216-kb region.

    Gene model reviewed during 6.01

    Sequence Ontology: Class of Gene
    nuclear_gene
    (Drosophila Heterochromatin Genome Project, 2007)
    pseudogene
    (FlyBase Genome Annotators, 2014)
    Transcript Data
    Annotated Transcripts
    Name
    FlyBase ID
    RefSeq ID
    Length (nt)
    CR40801-RC
    FBtr0347466
    591
    Additional Transcript Data and Comments
    Reported size (kB)
    Comments
    External Data
    Crossreferences
    Sequences Consistent with the Gene Model
    Nucleotide / Polypeptide Records
    Mapped Features

    Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\CR40801 using the Feature Mapper tool.

    External Data
    Crossreferences
    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).

    -0.57

    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\CR40801 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 ( 0 )
    For All Classical and Insertion Alleles Show
     
    Other relevant insertions
    Transgenic Constructs ( 0 )
    For All Alleles Carried on Transgenic Constructs Show
    Transgenic constructs containing/affecting coding region of CR40801
    Transgenic constructs containing regulatory region of CR40801
    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) (0)
      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) (0)
      Mus musculus (laboratory mouse) (0)
      Xenopus tropicalis (Western clawed frog) (0)
      Danio rerio (Zebrafish) (0)
      Caenorhabditis elegans (Nematode, roundworm) (0)
      Anopheles gambiae (African malaria mosquito) (0)
      Arabidopsis thaliana (thale-cress) (0)
      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:CR40801. Refer to their site for version information.
      Paralogs
      Downloads
      Download All DIOPT Paralogs
      Paralogs (via DIOPT v9.1)
      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?
        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
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        Y
        Recombination map
        Cytogenetic map
        Sequence location
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        Experimentally Determined Recombination Data
        Location
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (0)
        Genomic Clones (0)
         
          cDNA Clones (0)
           

          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

                        Sequence of transcript(s) changed in r6 genomic release relative to r5 release.

                        (FlyBase Genome Annotators, 2014)

                        Annotation CG40801 renamed CR40801 in release 6.03 of the genome annotation.

                        (FlyBase Genome Annotators, 2014)

                        New annotation (CG40801) in release 5.2 of the genome annotation.

                        (Drosophila Heterochromatin Genome Project, 2007)
                        Relationship to Other Genes
                        Source for database merge of
                        Additional comments
                        Nomenclature History
                        Source for database identify of
                        Nomenclature comments
                        Etymology
                        Synonyms and Secondary IDs (3)
                        Reported As
                        Symbol Synonym
                        CG40801
                        (FlyBase Genome Annotators, 2014, Drosophila Heterochromatin Genome Project, 2007)
                        CR40801
                        (FlyBase Genome Annotators, 2014)
                        Name Synonyms
                        ade5-related
                        (Méndez-Lago et al., 2011)
                        Secondary FlyBase IDs
                        • FBan0040801
                        Datasets (0)
                        Study focus (0)
                        Experimental Role
                        Project
                        Project Type
                        Title
                        Study result (0)
                        Result
                        Result Type
                        Title
                        External Crossreferences and Linkouts ( 11 )
                        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.
                        Other crossreferences
                        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
                        KEGG Genes - Molecular building blocks of life in the genomic space.
                        MARRVEL_MODEL - MARRVEL (model organism gene)
                        Linkouts
                        DroID - A comprehensive database of gene and protein interactions.
                        DRSC - Results frm RNAi screens
                        FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
                        References (5)