FlyBase Gene Report: Dmel\Ir56a

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

6 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

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

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

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 monoatomic 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 membrane

inferred from sequence model

(Benton et al., 2009)

Gene Group (FlyBase)

DIVERGENT IONOTROPIC RECEPTORS

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

Number of Unique Polypeptides

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

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry A1ZBG7)

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 5.46

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

UniProt

RefSeq ID

GenBank

Ir56a-PA

FBpp0085779

69.5

603

8.65

A1ZBG7

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

AE013599 / AAM68433

UniProt

A1ZBG7

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

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).

NA

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)

Reporter: P{Ir56a-GAL4.K}

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

abdominal 5 ventral multidendritic neuron v'td1

(Qian et al., 2018)

abdominal 6 ventral multidendritic neuron v'td1

(Qian et al., 2018)

abdominal 7 ventral multidendritic neuron v'td2

(Qian et al., 2018)

adult stage

high salt/bitter-sensing neuron | subset of intermediate labellar taste bristle

(Koh et al., 2014)

high salt/bitter-sensing neuron | subset of intermediate labellar taste bristle I-a

(Koh et al., 2014)

high salt/bitter-sensing neuron | subset of bitter-sensitive labellar taste bristle

(Koh et al., 2014)

high salt/bitter-sensing neuron | subset of short labellar taste bristle S-b

(Koh et al., 2014)

high salt/bitter-sensing neuron | subset of short labellar taste bristle S-c

(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)

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Ir56a in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\Ir56a

View exonic expression by tissue for Dmel\Ir56a

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

246471/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0050125

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0050125

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0050125

Flygut - An atlas of the Drosophila adult midgut

FBgn0050125

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 ( 4 )

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 ( 1 )

Gene disrupted in

Df(2R)Exel6068

(Ryder, 2004.4.26)

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.

Lethality

Allele

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Ir56a^GD2081

viable, with Scer\GAL4^Mef2.PR

Ir56a^GD2081

viable, with Scer\GAL4^pnr-MD237

Ir56a^GD2081

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

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (0)

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

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) (1)

Cele\glr-8

1 of 14

Yes

Anopheles gambiae (African malaria mosquito) (12)

Agam\AgaP_AGAP001811

1 of 12

Yes

Agam\AgaP_AGAP001812

1 of 12

Yes

Agam\AgaP_AGAP002904

1 of 12

Yes

Agam\AgaP_AGAP005677

1 of 12

Yes

Agam\AgaP_AGAP005678

1 of 12

Yes

Agam\AgaP_AGAP005679

1 of 12

Yes

Agam\AgaP_AGAP006407

1 of 12

Yes

Agam\AgaP_AGAP006440

1 of 12

Yes

Agam\AgaP_AGAP012872

1 of 12

Yes

Agam\AgaP_AGAP013085

1 of 12

Yes

Agam\AgaP_AGAP013242

1 of 12

Yes

Agam\AgaP_AGAP013436

1 of 12

Yes

Arabidopsis thaliana (thale-cress) (1)

Atha\GLR3.3

1 of 13

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:Ir56a. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (50)

3 of 13

3 of 13

3 of 13

3 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

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?

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

Other Interaction Browsers

Summary of Genetic Interactions

esyN Network Diagram

Other Interaction Browsers

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.

FBgn0050125

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

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}prod^k08810 and P{PZ}ena⁰²⁰²⁹&P{lacW}cora^k08713

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 (6)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

60903

y¹ v¹; P{TRiP.HMJ22895}attP40

81233

w^*; Bl¹/CyO; P{Ir56a-GAL4.C}attP2

NIG-Fly

HMJ22895

y¹ v¹; P{TRiP.HMJ22895}attP40/CyO

2RG-1130

y² VhaAC39-1^cho-1 v¹; P{U6-Ir56a.NIG.sgRNA}attP40/CyO

VDRC

v109691

P{KK103296}VIE-260B

v5010

w¹¹¹⁸; P{GD2081}v5010

Genomic Clones (29)

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

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

FBgn0050125

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

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

(FlyBase Genome Annotators, 2002-2003)

Relationship to Other Genes

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)

Nomenclature History

Source for database identify of

Source for identity of: Ir56a CG30125

(Benton et al., 2009)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (7)

Reported As

Symbol Synonym

56a

(Ni, 2020)

CG30125

(National Institute of Genetics Fly Stocks, 2022-, Croset et al., 2010, Benton et al., 2009, Keleman et al., 2009.8.5, Perkins et al., 2009, Riedl et al., 2007)

DmelIR56a

(Croset et al., 2010)

IR56a

(Ni, 2020, Rimal and Lee, 2018, Joseph et al., 2017, Shim et al., 2015, Koh et al., 2014, Croset et al., 2010, Benton et al., 2009)

Ir56a

(Ali et al., 2022, Guo et al., 2020, Rimal et al., 2019, Ganguly et al., 2017, Crocker et al., 2016, dos Santos, 2014, Kwon et al., 2013)

Name Synonyms

CG30125

Ionotropic receptor 56a

ionotropic receptor 56a

(Benton et al., 2009)

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 18 )

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.

246471

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.

AAM68433

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.

A1ZBG7

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

A1ZBG7

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.