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Gene Dmel\CG44249

General Information
Symbol	Dmel\CG44249	Species	D. melanogaster
Name		Annotation symbol	CG44249
Feature type	protein_coding_gene	FlyBase ID	FBgn0265184
Gene Model Status	Current	Stock availability	3 publicly available
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	58B1-58B2	Sequence location	2R:17,954,388..17,955,877 [+]
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	This gene is referred to in FlyBase by the symbol Dmel\CG44249 (FBgn0265184). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: mRNA binding; nucleic acid binding. It is reported to be involved in the biological process: mRNA splicing, via spliceosome. 2 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide. Gene sequence location is 2R:17954388..17955877.
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.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
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 58B1-58B2
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\CG44249 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Shares 5' UTR with downstream gene. Gene model reviewed during 5.49
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) CG44249-RA FBtr0339103     1490   407
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 CG44249-PA   FBpp0308248   45.4   407   9.43
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 BF487049   BT024321
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL
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
U11/U12 snRNP inferred from direct assay (Schneider et al., 2004) U12 snRNP inferred from direct assay (Schneider et al., 2004)
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
[an error occurred while processing this directive] FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
modENCODE Anatomy RNA-Seq
[an error occurred while processing this directive]
modENCODE Development RNA-Seq
[an error occurred while processing this directive] modENCODE Temporal Expression Data (Graveley et al., 2011)
modENCODE Cell Lines RNA-Seq
[an error occurred while processing this directive]
modENCODE Treatments RNA-Seq
[an error occurred while processing this directive]
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (Graveley et al., 2011) mE1_20_mRNA_expression_cluster_02
External Data & Images
Linkouts
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable, with Scer\GAL4pnr-MD237 CG44249GD10043 Phenotype manifest in Allele
Classical Alleles ( 1 )
For All Classical Alleles Show
Allele of CG44249 Class Mutagen Stocks Known lesion CG44249EY16388 1 Yes
Alleles Carried on Transgenic Constructs ( 1 )
For All Alleles Carried on Transgenic Constructs Show
Allele of CG44249 Class Mutagen Stocks Known lesion CG44249GD10043 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EPgy2}SnpEY16388 NA
Gene Ontology: Function, Process & Cellular Component ( 6 unique terms )
Terms Based on Experimental Evidence ( 2 terms )
Molecular Function ( 0 terms)
Biological Process ( 0 terms)
Cellular Component
CV term Evidence References
U11/U12 snRNP inferred from direct assay (Schneider et al., 2004) U12 snRNP inferred from direct assay (Schneider et al., 2004)
Terms Based on Predictions or Assertions ( 4 terms )
Molecular Function
CV term Evidence References
mRNA binding inferred from sequence or structural similarity (Lasko, 2000) nucleic acid binding inferred from sequence model with InterPro:IPR000504 (Curators, 2008--)
Biological Process
CV term Evidence References
mRNA splicing, via spliceosome inferred by curator from GO:0005693|GO:0034693 (Schneider et al., 2004)
Cellular Component
CV term Evidence References
U12-type spliceosomal complex inferred from sequence or structural similarity with human RNPC3 (Schneider et al., 2004)
Sequence Ontology: Class of Gene
	nuclear_gene (FlyBase Genome Annotators, 2012) protein_coding_gene (FlyBase Genome Annotators, 2012)
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
CG44249 - CG11594 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) CG44249 - CG7339 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) CG44249 - ctp anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions CG44249 allele Gene References
External Data
Linkouts
Orthologs
OrthoDB Orthologs (34) - based on analysis using Dmel annotation version 5.41
OrthoDB Ortholog Groups - Dmel gene model changed subsequent to version 5.45
	OrthoDB orthology group searches (Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288) Drosophila inclusive ortholog search EOG6NKCFK Dipteran inclusive ortholog search EOG6G4H04 Insect inclusive ortholog search EOG6CVF3M Arthropod inclusive ortholog search EOG602V7T Metazoa inclusive ortholog search EOG6D2KHQ
Orthologs in Drosophila Species (EOG6NKCFK)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\CG44249     Drosophila melanogaster fruit fly  Dmel\Snp     Drosophila erecta   Dere\GG22156   Y Drosophila yakuba   Dyak\GE12236   Y Drosophila ananassae   Dana\GF13283   Y Drosophila pseudoobscura pseudoobscura   Dpse\GA25008   Y Drosophila persimilis   Dper\GL16971   Y Drosophila willistoni   Dwil\GK15943   Y Drosophila mojavensis   Dmoj\GI18815   Y Drosophila grimshawi   Dgri\GH20545   Y
Orthologs in non-Drosophila Dipterans (EOG6G4H04)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL005083 Y Anopheles gambiae Malaria mosquito  Agam\AGAP005296 Y Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ003638 Y
Orthologs in non-Dipteran Insects (EOG6CVF3M)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB42263 Y Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG009561 Y Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH22208 Y Atta cephalotes Leafcutter ant  Acep\ACEP17613 Y Camponotus floridanus Florida carpenter ant  Cflo\CFLO20049 Y Linepithema humile Argentine ant  Lhum\LH15229 Y Pogonomyrmex barbatus Red harvester ant  Pbar\PB18163 Y Solenopsis invicta Red fire ant  Sinv\SINV13872 Y Acyrthosiphon pisum Pea aphid  Apim\ACYPI009870 Y Bombyx mori Silkmoth  Bmor\BGIBMGA011921 Y Pediculus humanus Human body louse  Phum\PHUM293630 Y Tribolium castaneum Red flour beetle  Tcas\TC010372 Y
Orthologs in non-Insect Arthropods (EOG602V7T)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\Ehd3 Y Ixodes scapularis Deer tick  Isca\ISCW012575 Y
Orthologs in non-Arthropod Metazoa (EOG6D2KHQ)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_002130gn Y Danio rerio Zebrafish  Drer\rnpc3 Y Xenopus tropicalis Western clawed frog  Xtro\rnpc3 Y Gallus gallus Domestic chicken  Ggal\RNPC3 Y Mus musculus House mouse  Mmus\Rnpc3 Y Rattus norvegicus Norway rat  Rnor\Rnpc3 Y Homo sapiens Human  Hsap\RNPC3 Y
Human Orthologs (1)
Gene OMIM HGNC Hsap\RNPC3
AAA Orthologs (0) based on analysis using Dmel annotation version 4.3
No orthologs identified
Stocks & Reagents
Stocks Listed in FlyBase ( 3 )
Bloomington	21207 y1 w67c23; P{EPgy2}SnpEY16388
VDRC	v33705 w1118; P{GD10043}v33705 v33706 w1118; P{GD10043}v33706
Genomic Clones ( 1 )
	BACR30O14 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 2 )
	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	IP10959
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT21721
Other clones
RNAi & Array Information
Linkouts
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: CG30327 CG6393 (FlyBase Genome Annotators, 2008) Source for merge of: CG30327 CG11478 (FlyBase Genome Annotators, 2002-2003)
Additional comments	Annotation CG42257 split into CG44248 (which corresponds to Snp) and CG44249 in release 5.49 of the genome annotation. (FlyBase Genome Annotators, 2012) Split based in part on on data from FBrf0191914. (FlyBase Genome Annotators, 2012) Annotations CG30327 and CG6393 merged as CG42257 in release 5.8 of the genome annotation. (FlyBase Genome Annotators, 2008) Release 1 annotation CG11478 was eliminated in release 2 of the genome annotation and has been restored in release 3.0 of the genome annotation, where it has been renamed CG30327. (FlyBase Genome Annotators, 2002-2003)
Other Comments
	Identified as a potential ortholog of the 65K subunit of the U12 small nuclear ribonucleoprotein particle (snRNP). (Schneider et al., 2004)
External Crossreferences & Linkouts
Sequence Crossreferences
Other Crossreferences
Linkouts
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	65K (Schneider et al., 2004) CG11478   cg11478 (Lasko, 2000) CG30327 (Giot et al., 2003, ) CG42257 (FlyBase Genome Annotators, 2008, ) CG44249 (FlyBase Genome Annotators, 2012)
Name Synonym
Secondary FlyBase IDs
	FBgn0034686 FBgn0050327 FBgn0259142
References ( 13 )
Research paper	Schneider et al., 2004, Proc. Natl. Acad. Sci. U.S.A. 101(26): 9584--9589 Identification of an evolutionarily divergent U11 small nuclear ribonucleoprotein particle in Drosophila. [FBrf0179434] Lasko, 2000, J. Cell Biol. 150(2): F51--F56 The Drosophila melanogaster genome: translation factors and RNA binding proteins. [FBrf0129923]
Supplementary material	Graveley et al., 2011, Nature 471(7339): Supplementary Table 33. Fuzzy Cluster Members. [FBrf0213980] Mummery-Widmer et al., 2009, Nature 458(7241): Supplementary Table 2 - Genome-wide bristle screen results. [FBrf0214518] Giot et al., 2003, Science 302(5651): Tables S1 to S7. [FBrf0166452]
Personal communication to FlyBase	Mintseris et al., 2009.11.23, DPiM: the Drosophila Protein Interaction Mapping project DPiM: the Drosophila Protein Interaction Mapping project [FBrf0209452] Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327]
FlyBase analysis	FlyBase Genome Annotators, 2012, Changes affecting gene model number or type in release 5.49 of the annotated D.melanogaster genome. Changes affecting gene model number or type in release 5.49 of the annotated D.melanogaster genome. [FBrf0219499] FlyBase Curators, 2010-, Gene Ontology (GO) annotation review. Gene Ontology (GO) annotation review. [FBrf0216433] Curators, 2008--, Assigning Gene Ontology (GO) terms by sequence similarity in FlyBase. Assigning Gene Ontology (GO) terms by sequence similarity in FlyBase. [FBrf0202953] FlyBase Genome Annotators, 2008, Changes affecting gene model number or type in release 5.8 of the annotated D.melanogaster genome. Changes affecting gene model number or type in release 5.8 of the annotated D.melanogaster genome. [FBrf0203206] FlyBase Genome Annotators, 2002-2003, Changes affecting gene model number or type in releases 3.0 and 3.1 of the annotated D.melanogaster genome. Changes affecting gene model number or type in releases 3.0 and 3.1 of the annotated D.melanogaster genome. [FBrf0148886] FlyBase, 1996-, FlyBase inference based on genome sequence analysis. FlyBase inference based on genome sequence analysis. [FBrf0104946]