A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\CG4119

General Information
SymbolDmel\CG4119SpeciesD. melanogaster
NameCG4119Annotation symbolCG4119
Feature typeprotein_coding_geneFlyBase IDFBgn0028474
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)XRecombination map
Cytogenetic map5A10-5A11Sequence locationX:5,560,127..5,564,586 [+]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
This gene is referred to in FlyBase by the symbol CG4119 (FBgn0028474). It has the cytological map location 5A10-5A11. Its sequence location is X:5560127..5564586. Its molecular function is described as: mRNA binding; nucleic acid binding; nucleotide binding. It is involved in the biological process regulation of alternative nuclear mRNA splicing, via spliceosome. 2 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide.

hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
5A10-5A11  
Limits computationally determined from genome sequence between P{EP}CG3249EP1400 and P{EP}Tre1EP496  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology)
References
Gene Order (overall orientation not stated)
References
hide Gene Model & Products
Please see the GBrowse view of Dmel\CG4119 for information on other features
detailed view FBtr0070851 FBtr0070850 FBtr0070852 FBtr0070799 FBtr0070849 FBtr0070800 FBpp0070816 FBpp0070815 FBpp0070817 FBpp0070765 FBpp0070814 FBpp0070766 FBti0068680 FBti0071846 FBti0027948 FBti0013123 FBti0071309
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
CG4119-RA
FBtr0070799
 NM_132014
  3716
  998
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
CG4119-PA  
FBpp0070765  
112.7  
998  
6.40  
  NP_572242
  AAF46056
Additional Polypeptide Data & Comments
Reported size (kD)
Comments
External Data
Linkouts
PANTHER - Protein classification by function, families, and pathways
•
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
RNA recognition motif, RNP-1 (IPR000504)
Splicing factor PWI (IPR002483)
Nucleotide-binding, alpha-beta plait (IPR012677)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA201894
 
AA202166
 
AA433207
 
AA440385
 
AA441505
 
AA536488
 
AA538946
 
AA539290
 
AA541019
 
AA816485
 
AA820162
 
AA941298
 
AA942579
 
AA949133
 
AA949186
 
AA949540
 
AA951174
 
AA978860
 
AE003435
AAF46056
 
AF181653
AAD55438
 
AI109149
 
AI455349
 
AI456932
 
AI512959
 
AI514977
 
AI518179
 
AI518525
 
AI530779
 
AI531230
 
AI534321
 
AI541619
 
AI543021
 
AI543340
 
AI544227
 
AI546138
 
BE975972
 
BE976046
 
BE978411
 
BG638843
 
BI173468
 
BI236544
 
BI238595
 
BI243334
 
BI356053
 
BI636272
 
BI636595
 
BI637391
 
CO262394
 
CO273840
 
CO291323
 
CO292161
 
CO339782
 
CO343832
 
DN154025
 
EC051565
 
EC055080
 
EC056391
 
EC059011
 
EC059012
 
EC061948
 
EC063595
 
EC068819
 
EC078768
 
EC199663
 
EC209419
 
EC251514
 
EC254985
 
EC261379
 
EC262348
 
EC262376
 
EC263087
 
EC265840
 
EC266006
 
EC267653
 
EC267849
 
LD37621
 
 
UniProtKB/Swiss-Prot
    UniProtKB/TrEMBL
    Maps to
    Does NOT map to
    Identified with
    (BDGP Project Members, 2000-)
    hide Mapped Features & Mutations
    Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here
    Type
    Symbol & Location
    Additional Notes
    References
    hide External Data
    Linkouts
    DEDB - Drosophila exon database: splicing graphs
    •
    Crossreferences
    hide Expression Data
    FlyBase-Curated Data
    Transcript and
    Protein data     		Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
    hide Summary of Transcript Expression
    Stage
    Tissue/Position
    Reference
    Marker for
      Subcellular Localization
      CV Term
      hide Summary of Polypeptide Expression
      Stage
      Tissue/Position
      Reference
      Marker for
        Subcellular Localization
        CV Term
        hide Microarray Data
        Developmental timecourse, Costello et al., 2008 (Original data from Arbeitman et al., 2002)
        Untitled Document detailed view FBtr0070851 FBtr0070850 FBtr0070852 FBtr0070799 FBtr0070849 FBtr0070800
        AI518179
        hide External Data & Images
        Linkouts
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Phenotype manifest in
        Allele
        hide Classical Alleles ( 1 )
        For All Classical Alleles Show

        Allele of CG4119ClassMutagenStocksKnown lesion
        CG4119GS7456
          		0 --
          hide Alleles Carried on Transgenic Constructs ( 1 )
          For All Alleles Carried on Transgenic Constructs Show

          Allele of CG4119ClassMutagenStocksKnown lesion
          CG4119GD112221 Yes
          hide Aneuploid Aberrations
          Useful deficiency
           
          hide Transgenic Constructs & Insertions
          Transgenic Constructs
          Type of construct
          Name
          Expression data
          UAS construct
          P{GD11222}
          NA
          Insertions
          Type of insertions
          Name
          Expression data
          insertion of mobile activating element
          P{GSV2}CG4119GS7456
          NA
          hide Related Comments
          Please look at the allele reports for the complete phenotype data
          hide Gene Ontology: Function, Process & Cellular Component ( 5 )
          hide Molecular Function
          CV term
          Evidence
          References
          mRNA binding
          inferred from sequence or structural similarity
          (Lasko, 2000)
          nucleic acid binding
          inferred from electronic annotation with InterPro:IPR000504
          (FlyBase Curators et al., 2004-)
          nucleotide binding
          inferred from electronic annotation with InterPro:IPR012677
          (FlyBase Curators et al., 2004-)
          hide Biological Process
          CV term
          Evidence
          References
          regulation of alternative nuclear mRNA splicing, via spliceosome
          inferred from mutant phenotype
          (Park et al., 2004)
          hide Cellular Component
          CV term
          Evidence
          References
          nucleus
          inferred by curator from GO:0000381
          (Park et al., 2004)
          hide Sequence Ontology: Class of Gene
          protein_coding_gene
           
          nuclear_gene
           
          hide Interactions & Pathways
          hide Summary of Genetic Interactions
          Interacts with
          Please look at the allele data for full details of the genetic interactions
          CG4119 allele
          Gene
          References
          unspecified
          Nsf2
          (Laviolette et al., 2005)
          hide External Data
          Linkouts
          BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
          •
          Drosophila PIMRider - The Drosophila Protein Interaction map
          •
          hide Orthologs
          Genome-wide drosophilid orthologs
          Curated drosophilid orthologs
           
          Linkouts
          InParanoid orthologs - Eukaryotic orthologs
          •
          hide Functional Complementation between Species
          hide Inter-Species Misexpression Data
          Produces phenotype in
          Produces NO phenotype in
          hide Stocks & Reagents
          hide Stocks Listed in FlyBase ( 1 )
          VDRC
          v26395
          w1118; P{GD11222}v26395
          hide Genomic Clones ( 2 )
          hide cDNA Clones ( 53 )
          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
          hide RNAi & Array Information
          Affy Oligo
          Linkouts
          DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
          •
          GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
          •
          hide Antibody Information
          hide Other Information
          hide Discoverer
          hide Etymology
          hide Identification
          hide Position Effect Variegation Data
          hide Relationship to Other Genes
          Source for database identity of
          Source for database merge of
          Additional comments
          "l(1)G0384" may affect "CG4119".
          (Peter et al., 2002)
          hide Comments About Role
          hide Comments About Molecular Function
          hide Other Comments
          hide External Crossreferences & Linkouts
          Sequence Crossreferences
          RefSeq (Transcripts)
          •
          RefSeq (Proteins)
          •
          DDBJ / EMBL / GenBank
          •
          UniProtKB/TrEMBL
          •
          Other Crossreferences
          InterPro domains - A database of protein families, domains, and functional sites
          •
          RNA recognition motif, RNP-1 (IPR000504)
          Splicing factor PWI (IPR002483)
          Nucleotide-binding, alpha-beta plait (IPR012677)
          Linkouts
          BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
          •
          DEDB - Drosophila exon database: splicing graphs
          •
          DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
          •
          Drosophila PIMRider - The Drosophila Protein Interaction map
          •
          FLIGHT - Cell culture data for RNAi and other high-throughput technologies
          •
          FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans
          •
          GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
          •
          GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
          •
          InParanoid orthologs - Eukaryotic orthologs
          •
          PANTHER - Protein classification by function, families, and pathways
          •
          hide Synonyms & Secondary IDs ( 3 )
          Reported As
          Symbol Synonym
          BcDNA:LD23634
          (Peter et al., 2002, )
          cg4119
          (Lasko, 2000)
          CG4119
          (Laviolette et al., 2005, Ramos et al., 2006)
          Name Synonym
          CG4119
           
          Secondary FlyBase IDs
            hide References ( 12 )
            Research paper
            Ramos et al., 2006, Genetics 172(4): 2337--2349
            Genomic organization of gypsy chromatin insulators in Drosophila melanogaster. [FBrf0190762]
            Laviolette et al., 2005, Genetics 170(2): 779--792
            A genetic screen for suppressors of Drosophila NSF2 neuromuscular junction overgrowth. [FBrf0187645]