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Gene Dmel\Ir60d

General Information
Symbol	Dmel\Ir60d	Species	D. melanogaster
Name	Ionotropic receptor 60d	Annotation symbol	CG42291
Feature type	protein_coding_gene	FlyBase ID	FBgn0259187
Gene Model Status	Current	Stock availability	None publicly available
Also Known As	CG13582, IR60d
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	60D3-60D3	Sequence location	2R:20,406,946..20,408,670 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents Beta	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene Ionotropic receptor 60d is referred to in FlyBase by the symbol Dmel\Ir60d (CG42291, FBgn0259187). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: ligand-gated ion channel activity. Based on sequence similarity, it is predicted to be involved in the biological process: detection of chemical stimulus. No alleles are reported. It has one annotated transcript and one annotated polypeptide. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very low expression to a trough of no expression detected. Peak expression observed within 00-06 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: No expression detected in any larval or adult organs/tissues. Comments on Affy2 ProbeSet: ProbeSet 1625039_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of Ir60d. Gene sequence location is 2R:20406946..20408670.
User Contributed Data
	Beta version, feedback welcome
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 60D3-60D3
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Ir60d for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Gene model reviewed during 5.48
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Ir60d-RB FBtr0302288  NM_001144285   1725   574
Additional Transcript Data & 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 protein Ir60d-PB   FBpp0291494   66.3   574   9.23     NP_001137757   ACL83210
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE013599 ACL83210   CZ487706
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	B7YZQ6
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (FlyAtlas-RNA.adult) (FlyAtlas-RNA.larva)    Styles Linear Logarithmic Heatmap Back-to-back    Scales gene max expression Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: No expression detected in any larval or adult organs/tissues. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    0.775 Larval Midgut    2.8 Larval Hindgut    2.2 Larval Malpighian Tubules    1.3 Larval Fat Body    2.4 Larval Salivary Gland    6.1 Larval Trachea    2.225 Larval Carcass    2.05 Adult Head    1.3 Adult Eye    1.075 Adult Brain    0.5 Adult Thoracic-Abdominal Ganglion    2.9 Adult Crop    1.2 Adult Midgut    3.7 Adult Hindgut    1.6 Adult Malpighian Tubules    1.2 Adult Fat Body    2.1 Adult Salivary Gland    6.8 Adult Heart    0.475 Adult VirginFemale Spermatheca    2.5 Adult InseminatedFemale Spermatheca    2.2 Adult Ovary    1.3 Adult Testis    2.2 Adult Male Accessory Gland    2.9 Adult Carcass    5.3 Expression Level Scale  None   Low  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    0.775 Larval Midgut    2.8 Larval Hindgut    2.2 Larval Malpighian Tubules    1.3 Larval Fat Body    2.4 Larval Salivary Gland    6.1 Larval Trachea    2.225 Larval Carcass    2.05 Adult Head    1.3 Adult Eye    1.075 Adult Brain    0.5 Adult Thoracic-Abdominal Ganglion    2.9 Adult Crop    1.2 Adult Midgut    3.7 Adult Hindgut    1.6 Adult Malpighian Tubules    1.2 Adult Fat Body    2.1 Adult Salivary Gland    6.8 Adult Heart    0.475 Adult VirginFemale Spermatheca    2.5 Adult InseminatedFemale Spermatheca    2.2 Adult Ovary    1.3 Adult Testis    2.2 Adult Male Accessory Gland    2.9 Adult Carcass    5.3 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    0.775 Larval Midgut    2.8 Larval Hindgut    2.2 Larval Malpighian Tubules    1.3 Larval Fat Body    2.4 Larval Salivary Gland    6.1 Larval Trachea    2.225 Larval Carcass    2.05 Adult Head    1.3 Adult Eye    1.075 Adult Brain    0.5 Adult Thoracic-Abdominal Ganglion    2.9 Adult Crop    1.2 Adult Midgut    3.7 Adult Hindgut    1.6 Adult Malpighian Tubules    1.2 Adult Fat Body    2.1 Adult Salivary Gland    6.8 Adult Heart    0.475 Adult VirginFemale Spermatheca    2.5 Adult InseminatedFemale Spermatheca    2.2 Adult Ovary    1.3 Adult Testis    2.2 Adult Male Accessory Gland    2.9 Adult Carcass    5.3 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    0.775 Larval Midgut    2.8 Larval Hindgut    2.2 Larval Malpighian Tubules    1.3 Larval Fat Body    2.4 Larval Salivary Gland    6.1 Larval Trachea    2.225 Larval Carcass    2.05 Adult Head    1.3 Adult Eye    1.075 Adult Brain    0.5 Adult Thoracic-Abdominal Ganglion    2.9 Adult Crop    1.2 Adult Midgut    3.7 Adult Hindgut    1.6 Adult Malpighian Tubules    1.2 Adult Fat Body    2.1 Adult Salivary Gland    6.8 Adult Heart    0.475 Adult VirginFemale Spermatheca    2.5 Adult InseminatedFemale Spermatheca    2.2 Adult Ovary    1.3 Adult Testis    2.2 Adult Male Accessory Gland    2.9 Adult Carcass    5.3 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    0.775 Larval Midgut    2.8 Larval Hindgut    2.2 Larval Malpighian Tubules    1.3 Larval Fat Body    2.4 Larval Salivary Gland    6.1 Larval Trachea    2.225 Larval Carcass    2.05 Adult Head    1.3 Adult Eye    1.075 Adult Brain    0.5 Adult Thoracic-Abdominal Ganglion    2.9 Adult Crop    1.2 Adult Midgut    3.7 Adult Hindgut    1.6 Adult Malpighian Tubules    1.2 Adult Fat Body    2.1 Adult Salivary Gland    6.8 Adult Heart    0.475 Adult VirginFemale Spermatheca    2.5 Adult InseminatedFemale Spermatheca    2.2 Adult Ovary    1.3 Adult Testis    2.2 Adult Male Accessory Gland    2.9 Adult Carcass    5.3 Expression Level Scale  None   Low  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    0.775 Larval Midgut    2.8 Larval Hindgut    2.2 Larval Malpighian Tubules    1.3 Larval Fat Body    2.4 Larval Salivary Gland    6.1 Larval Trachea    2.225 Larval Carcass    2.05 Adult Head    1.3 Adult Eye    1.075 Adult Brain    0.5 Adult Thoracic-Abdominal Ganglion    2.9 Adult Crop    1.2 Adult Midgut    3.7 Adult Hindgut    1.6 Adult Malpighian Tubules    1.2 Adult Fat Body    2.1 Adult Salivary Gland    6.8 Adult Heart    0.475 Adult VirginFemale Spermatheca    2.5 Adult InseminatedFemale Spermatheca    2.2 Adult Ovary    1.3 Adult Testis    2.2 Adult Male Accessory Gland    2.9 Adult Carcass    5.3 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    0.775 Larval Midgut    2.8 Larval Hindgut    2.2 Larval Malpighian Tubules    1.3 Larval Fat Body    2.4 Larval Salivary Gland    6.1 Larval Trachea    2.225 Larval Carcass    2.05 Adult Head    1.3 Adult Eye    1.075 Adult Brain    0.5 Adult Thoracic-Abdominal Ganglion    2.9 Adult Crop    1.2 Adult Midgut    3.7 Adult Hindgut    1.6 Adult Malpighian Tubules    1.2 Adult Fat Body    2.1 Adult Salivary Gland    6.8 Adult Heart    0.475 Adult VirginFemale Spermatheca    2.5 Adult InseminatedFemale Spermatheca    2.2 Adult Ovary    1.3 Adult Testis    2.2 Adult Male Accessory Gland    2.9 Adult Carcass    5.3 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    0.775 Larval Midgut    2.8 Larval Hindgut    2.2 Larval Malpighian Tubules    1.3 Larval Fat Body    2.4 Larval Salivary Gland    6.1 Larval Trachea    2.225 Larval Carcass    2.05 Adult Head    1.3 Adult Eye    1.075 Adult Brain    0.5 Adult Thoracic-Abdominal Ganglion    2.9 Adult Crop    1.2 Adult Midgut    3.7 Adult Hindgut    1.6 Adult Malpighian Tubules    1.2 Adult Fat Body    2.1 Adult Salivary Gland    6.8 Adult Heart    0.475 Adult VirginFemale Spermatheca    2.5 Adult InseminatedFemale Spermatheca    2.2 Adult Ovary    1.3 Adult Testis    2.2 Adult Male Accessory Gland    2.9 Adult Carcass    5.3 Expression Level Scale  None   Low   Moderate   High   Very high  Heatmap Tissue   Expression Level Larval Central Nervous System     Larval Midgut     Larval Hindgut     Larval Malpighian Tubules     Larval Fat Body     Larval Salivary Gland     Larval Trachea     Larval Carcass     Adult Head     Adult Eye     Adult Brain     Adult Thoracic-Abdominal Ganglion     Adult Crop     Adult Midgut     Adult Hindgut     Adult Malpighian Tubules     Adult Fat Body     Adult Salivary Gland     Adult Heart     Adult VirginFemale Spermatheca     Adult InseminatedFemale Spermatheca     Adult Ovary     Adult Testis     Adult Male Accessory Gland     Adult Carcass     FlyAtlas Organ/Tissue Expression, larval vs. adult Larval Expression Level Tissue Adult Expression Level   NA  Head    1.3   NA  Eye    1.075   NA  Brain    0.5   0.775  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    2.9   NA  Crop    1.2   2.8  Midgut    3.7   2.2  Hindgut    1.6   1.3  Malpighian Tubules    1.2   2.4  Fat Body    2.1   6.1  Salivary Gland    6.8   NA  Heart    0.475   2.225  Trachea    NA   NA  VirginFemale Spermatheca    2.5   NA  InseminatedFemale Spermatheca    2.2   NA  Ovary    1.3   NA  Testis    2.2   NA  Male Accessory Gland    2.9   2.05  Carcass    5.3 FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
modENCODE Anatomy RNA-Seq
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (Graveley et al., 2011)
modENCODE Cell Lines RNA-Seq
modENCODE Treatments RNA-Seq
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (Graveley et al., 2011) mE1_20_mRNA_expression_cluster_08
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0259187 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG13582-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Phenotype manifest in Allele
Classical Alleles ( 0 )
For All Classical Alleles Show
Allele of Ir60d Class Mutagen Stocks Known lesion
Alleles Carried on Transgenic Constructs ( 0 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Ir60d Class Mutagen Stocks Known lesion
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 3 unique terms )
Terms Based on Experimental Evidence ( 0 terms )
Terms Based on Predictions or Assertions ( 3 terms )
Molecular Function
CV term Evidence References
ligand-gated ion channel activity inferred from sequence model (Benton et al., 2009)
Biological Process
CV term Evidence References
detection of chemical stimulus inferred from sequence or structural similarity with Ir92a (Benton et al., 2009)
Cellular Component
CV term Evidence References
integral to membrane inferred from sequence model (Benton et al., 2009)
Sequence Ontology: Class of Gene
	nuclear_gene (FlyBase Genome Annotators, 2008) protein_coding_gene (FlyBase Genome Annotators, 2008)
Interactions & Pathways
Summary of Physical Interactions
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Ir60d allele Gene References
External Data
Linkouts	DroID - A comprehensive database of gene and protein interactions. • FBgn0259187
Orthologs
OrthoDB Orthologs (11) - based on analysis using Dmel annotation version 5.41
OrthoDB Ortholog Groups
	OrthoDB orthology group searches (Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288) Drosophila inclusive ortholog search EOG6M662X Dipteran inclusive ortholog search No orthologs identified Insect inclusive ortholog search No orthologs identified Arthropod inclusive ortholog search No orthologs identified Metazoa inclusive ortholog search No orthologs identified
Orthologs in Drosophila Species (EOG6M662X)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Ir60b     Drosophila melanogaster fruit fly  Dmel\Ir60d     Drosophila simulans   Dsim\GD11867   Y Drosophila simulans   Dsim\GD11865   Y Drosophila sechellia   Dsec\GM11866   Y Drosophila erecta   Dere\GG22973   Y Drosophila yakuba   Dyak\GE14412   Y Drosophila ananassae   Dana\GF13622   Y Drosophila pseudoobscura pseudoobscura   Dpse\GA24095   Y Drosophila persimilis   Dper\GL20184   Y Drosophila willistoni   Dwil\GK19466   Y
Orthologs in non-Drosophila Dipterans (None identified)
No non-Drosophilid orthologies identified
Orthologs in non-Dipteran Insects (None identified)
No non-Dipteran orthologies identified
Orthologs in non-Insect Arthropods (None identified)
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (None identified)
No non-Arthropod Metazoa orthologies identified
Human Orthologs (0)
Gene OMIM HGNC
AAA Orthologs (0) based on analysis using Dmel annotation version 4.3
No orthologs identified
Stocks & Reagents
Stocks Listed in FlyBase ( 0 )
Genomic Clones ( 1 )
	BACR11C07 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 GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0259187 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 7354402
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Ir60d CG42291 (Benton et al., 2009)
Source for database merge of
Additional comments	Source for split of: CG13582 (FlyBase Genome Annotators, 2008) Annotation CG13582 split into CG42289, CG42290 and CG42291 in release 5.9 of the genome annotation. (FlyBase Genome Annotators, 2008)
Other Comments
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_001144285 RefSeq (Proteins) • NP_001137757 DDBJ / EMBL / GenBank • ACL83210 CZ487706 Entrez Gene - A searchable database of RefSeq genes. • 7354402 UniProtKB/TrEMBL • B7YZQ6
Other Crossreferences
Linkouts
	DroID - A comprehensive database of gene and protein interactions. • FBgn0259187 DRSC - Results from RNAi screens. • FBgn0259187 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0259187 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG13582-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0259187 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 7354402 modMine - Data generated by the modENCODE project. • FBgn0259187
Synonyms & Secondary IDs ( 7 )
Reported As
Symbol Synonym	CG13582 (Ryder, 2004.4.26, Gene Disruption Project members, 2001-, Kalmykova et al., 2005, FlyBase Genome Annotators, 2008, Shevelyov et al., 2009) CG42291 (Croset et al., 2010, Benton et al., 2009, ) DmelIR60d (Croset et al., 2010) Ir60d   IR60d (Benton et al., 2009, Croset et al., 2010)
Name Synonym	CG42291   ionotropic receptor 60d (Benton et al., 2009) Ionotropic receptor 60d
Secondary FlyBase IDs
	FBan0013582 FBgn0035015
References ( 9 )
Research paper	Croset et al., 2010, PLoS Genet. 6(8): e1001064 Ancient protostome origin of chemosensory ionotropic glutamate receptors and the evolution of insect taste and olfaction. [FBrf0211681] Benton et al., 2009, Cell 136(1): 149--162 Variant ionotropic glutamate receptors as chemosensory receptors in Drosophila. [FBrf0206496] Shevelyov et al., 2009, Proc. Natl. Acad. Sci. U.S.A. 106(9): 3282--3287 The B-type lamin is required for somatic repression of testis-specific gene clusters. [FBrf0207453] Kalmykova et al., 2005, Nucleic Acids Res. 33(5): 1435--1444 Regulated chromatin domain comprising cluster of co-expressed genes in Drosophila melanogaster. [FBrf0184224]
Supplementary material	Graveley et al., 2011, Nature 471(7339): Supplementary Table 33. Fuzzy Cluster Members. [FBrf0213980] Croset et al., 2010, PLoS Genet. 6(8): Supporting Information: Table S3. [FBrf0219605]
Personal communication to FlyBase	Ryder, 2004.4.26, Exelixis CG deletion data. Exelixis CG deletion data. [FBrf0184335] Gene Disruption Project members, 2001-, (Computer file) (Computer file) [FBrf0132177]
FlyBase analysis	FlyBase Genome Annotators, 2008, Changes affecting gene model number or type in release 5.9 of the annotated D.melanogaster genome. Changes affecting gene model number or type in release 5.9 of the annotated D.melanogaster genome. [FBrf0204763]