FB2021_01, released Feb 18, 2021

Gene: Dmel\Ir56a

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General Information
Symbol
Dmel\Ir56a
Species
D. melanogaster
Name
Ionotropic receptor 56a
Annotation Symbol
CG30125
Feature Type
protein_coding_gene
FlyBase ID
FBgn0050125
Gene Model Status
Current
Stock Availability
4 publicly available
Gene Snapshot
Contributions welcome
Other Summaries
Key Links
Genomic Location
Cytogenetic map
56B3-56B3
Sequence location
2R:19,094,267..19,096,174 [-]
Recombination map

2-88

RefSeq locus
NT_033778 REGION:19094267..19096174
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
GO Summary Ribbons
Gene Ontology (GO) Annotations (3 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
enables ligand-gated ion channel activity
inferred from sequence model
(Benton et al., 2009)
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 detection of chemical stimulus
inferred from sequence or structural similarity with FLYBASE:Ir92a; FB:FBgn0038789
(Benton et al., 2009)
Cellular Component (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
located_in integral component of membrane
inferred from sequence model
(Benton et al., 2009)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
    -
    Summaries
    Gene Group (FlyBase)
    DIVERGENT IONOTROPIC RECEPTORS -
    Divergent Ionotropic Receptors (IR), members of the IR family of ligand-gated ion channels, are largely species-specific, with low amino acid sequence identity. Expressed in gustatory organs, they are believed to be taste receptors. (Adapted from FBrf0211681).
    Gene Model and Products
    Number of Transcripts
    1
    Number of Unique Polypeptides
    1

    Please see the JBrowse view of Dmel\Ir56a 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
    Comments on Gene Model

    Gene model reviewed during 5.46

    Sequence Ontology: Class of Gene
    nuclear_gene
    protein_coding_gene
    Transcript Data
    Annotated Transcripts
    Name
    FlyBase ID
    RefSeq ID
    Length (nt)
    Assoc. CDS (aa)
    Ir56a-RA
    FBtr0086595
    NM_166323
    1812
    603
    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
    RefSeq ID
    GenBank
    Ir56a-PA
    FBpp0085779
    69.5
    603
    8.65
    NP_725850
    AAM68433
    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
    Crossreferences
    Linkouts
    Sequences Consistent with the Gene Model
    Nucleotide / Polypeptide Records
     
    UniProt
    Mapped Features

    Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Ir56a using the Feature Mapper tool.

    External Data
    Crossreferences
    Linkouts
    Expression Data
    Expression Summary Ribbons
    Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
    For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
    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
    Reporter: P{Ir56a-GAL4.C}
    Stage
    Tissue/Position (including subcellular localization)
    Reference
    third instar larval stage
    gustatory receptor neuron of larval abdomen
    (Sánchez-Alcañiz et al., 2018)
    adult stage
    gustatory receptor neuron of adult abdomen
    (Sánchez-Alcañiz et al., 2018)
    gustatory receptor neuron of wing
    (Sánchez-Alcañiz et al., 2018)
    mesothoracic leg taste bristle chemosensory neuron | subset
    (Sánchez-Alcañiz et al., 2018)
    metathoracic leg taste bristle chemosensory neuron | subset
    (Sánchez-Alcañiz et al., 2018)
    prothoracic leg taste bristle chemosensory neuron | subset
    (Sánchez-Alcañiz et al., 2018)
    ventral cibarial sense organ neuron
    (Sánchez-Alcañiz et al., 2018)
    labral sense organ neuron
    (Sánchez-Alcañiz et al., 2018)
    gustatory receptor neuron of labellar taste bristle
    (Sánchez-Alcañiz et al., 2018)
    Reporter: P{Ir56a-GAL4.K}
    Stage
    Tissue/Position (including subcellular localization)
    Reference
    adult stage
    L2 GRN | subset of I-type sensillum I8
    (Koh et al., 2014)
    L2 GRN | subset of I-type sensillum I7
    (Koh et al., 2014)
    L2 GRN | subset of I-type sensillum I6
    (Koh et al., 2014)
    L2 GRN | subset of I-type sensillum I5
    (Koh et al., 2014)
    L2 GRN | subset of I-type sensillum I4
    (Koh et al., 2014)
    L2 GRN | subset of I-type sensillum I3
    (Koh et al., 2014)
    L2 GRN | subset of S-type sensillum S2
    (Koh et al., 2014)
    L2 GRN | subset of S-type sensillum S4
    (Koh et al., 2014)
    L2 GRN | subset of S-type sensillum S5
    (Koh et al., 2014)
    L2 GRN | subset of S-type sensillum S10
    (Koh et al., 2014)
    L2 GRN | subset of S-type sensillum S8
    (Koh et al., 2014)
    mesothoracic leg taste bristle chemosensory neuron | subset of mesothoracic tarsal segment 5
    (Koh et al., 2014)
    metathoracic leg taste bristle chemosensory neuron | subset of metathoracic tarsal segment 5
    (Koh et al., 2014)
    chemosensory neuron of adult labral sensillum 7
    (Koh et al., 2014)
    chemosensory neuron of adult labral sensillum 7 | subset
    (Joseph et al., 2017)
    third instar larval stage
    abdominal 5 ventral multidendritic neuron vtd1
    (Qian et al., 2018)
    abdominal 6 ventral multidendritic neuron vtd1
    (Qian et al., 2018)
    abdominal 7 ventral multidendritic neuron vtd2
    (Qian et al., 2018)
    High-Throughput Expression Data
    Associated Tools

    GBrowse - Visual display of RNA-Seq signals

    View Dmel\Ir56a in GBrowse 2
    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
    FLIGHT - Cell culture data for RNAi and other high-throughput technologies
    FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
    Flygut - An atlas of the Drosophila adult midgut
    Images
    FlyBase Wiki
    Image Based Resources
    Alleles, Insertions, Transgenic Constructs, and Aberrations
    Classical and Insertion Alleles ( 1 )
    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 Ir56a
    Transgenic constructs containing regulatory region of Ir56a
    Aberrations (Deficiencies and Duplications) ( 1 )
    Inferred from experimentation
    Gene disrupted in
    Df(2R)Exel6068
    (Ryder, 2004.4.26)
    Inferred from location
    Phenotypes
    For more details about a specific phenotype click on the relevant allele symbol.
    Lethality
    Allele
    viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
    viable, with Scer\GAL4Mef2.PR
    viable, with Scer\GAL4pnr-MD237
    Phenotype manifest in
    Allele
    Orthologs
    Downloads
    Download All DIOPT Orthologs
    Download All OrthoDB Orthologs
    Human Orthologs (via DIOPT v8.0)
    Homo sapiens (Human) (0)
    No records found.
    Model Organism Orthologs (via DIOPT v8.0)
    Mus musculus (laboratory mouse) (0)
    No records found.
    Rattus norvegicus (Norway rat) (0)
    No records found.
    Xenopus tropicalis (Western clawed frog) (0)
    No records found.
    Danio rerio (Zebrafish) (0)
    No records found.
    Caenorhabditis elegans (Nematode, roundworm) (0)
    No records found.
    Arabidopsis thaliana (thale-cress) (0)
    No records found.
    Saccharomyces cerevisiae (Brewer's yeast) (0)
    No records found.
    Schizosaccharomyces pombe (Fission yeast) (0)
    No records found.
    Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190FNM )
    Organism
    Common Name
    Gene
    AAA Syntenic Ortholog
    Multiple Dmel Genes in this Orthologous Group
    Drosophila suzukii
    Spotted wing Drosophila
    Dsuz\DS10_00005819
    Drosophila simulans
    Dsim\GD25339
    Drosophila sechellia
    Dsec\GM19852
    Drosophila erecta
    Dere\GG20923
    Drosophila yakuba
    Dyak\GE13861
    Drosophila ananassae
    Dana\GF13731
    Drosophila pseudoobscura pseudoobscura
    Dpse\GA15666
    Drosophila persimilis
    Dper\GL10570
    Drosophila willistoni
    Dwil\GK20683
    Drosophila virilis
    Dvir\GJ26430
    Drosophila mojavensis
    Dmoj\GI22316
    Drosophila grimshawi
    Dgri\GH13972
    Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG09150B3Q )
    Organism
    Common Name
    Gene
    Multiple Dmel Genes in this Orthologous Group
    Aedes aegypti
    Yellow fever mosquito
    Aaeg\AAEL018072
    Culex quinquefasciatus
    Southern house mosquito
    Cqui\CPIJ016832
    Culex quinquefasciatus
    Southern house mosquito
    Cqui\CPIJ000432
    Culex quinquefasciatus
    Southern house mosquito
    Cqui\CPIJ018182
    Culex quinquefasciatus
    Southern house mosquito
    Cqui\CPIJ019132
    Culex quinquefasciatus
    Southern house mosquito
    Cqui\CPIJ015485
    Culex quinquefasciatus
    Southern house mosquito
    Cqui\CPIJ019880
    Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( None identified )
    No non-Dipteran orthologies identified
    Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )
    No non-Insect Arthropod orthologies identified
    Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )
    No non-Arthropod Metazoa orthologies identified
    Paralogs
    Downloads
    Download All DIOPT Paralogs
    Paralogs (via DIOPT v8.0)
    Drosophila melanogaster (Fruit fly) (0)
    No records found.
    Human Disease Associations
    FlyBase Human Disease Model Reports
      Disease Model Summary Ribbon
      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 v8.0 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)
      2R
      Recombination map

      2-88

      Cytogenetic map
      56B3-56B3
      Sequence location
      2R:19,094,267..19,096,174 [-]
      FlyBase Computed Cytological Location
      Cytogenetic map
      Evidence for location
      56B3-56B3
      Limits computationally determined from genome sequence between P{lacW}prodk08810 and P{PZ}ena02029&P{lacW}corak08713
      Experimentally Determined Cytological Location
      Cytogenetic map
      Notes
      References
      Experimentally Determined Recombination Data
      Location

      2-88

      (FlyBase, 2016)

      2-93.0

      (Comeron et al., 2012)
      Left of (cM)
      Right of (cM)
      Notes
      Stocks and Reagents
      Stocks (4)
      Genomic Clones (29)
      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 GBrowse 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
                GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
                Antibody Information
                Laboratory Generated Antibodies
                 
                Commercially Available Antibodies
                 
                Other Information
                Relationship to Other Genes
                Source for database identify of

                Source for identity of: Ir56a CG30125

                (Benton et al., 2009)
                Source for database merge of
                Additional comments

                The Ir56a gene, one of 44 "divergent" ionotropic receptor genes in D. melanogaster, may have been derived from an ancestral ionotropic receptor gene by retroposition, and in some cases, subsequent gene duplication.

                (Croset et al., 2010)
                Other Comments

                New annotation (CG30125) in release 3 of the genome annotation.

                (FlyBase Genome Annotators, 2002-2003)
                Origin and Etymology
                Discoverer
                Etymology
                Identification
                External Crossreferences and Linkouts ( 15 )
                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/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
                Other crossreferences
                Flygut - An atlas of the Drosophila adult midgut
                GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
                KEGG Genes - Molecular building blocks of life in the genomic space.
                modMine - A data warehouse for the modENCODE project
                Linkouts
                DroID - A comprehensive database of gene and protein interactions.
                DRSC - Results frm RNAi screens
                FLIGHT - Cell culture data for RNAi and other high-throughput technologies
                FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
                FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
                FlyMine - An integrated database for Drosophila genomics
                Synonyms and Secondary IDs (6)
                Datasets (0)
                Study focus (0)
                Experimental Role
                Project
                Project Type
                Title
                References (30)