A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\CG30020

General Information
SymbolDmel\CG30020SpeciesD. melanogaster
NameCG30020Annotation symbolCG30020
Feature typeprotein_coding_geneFlyBase IDFBgn0050020
Created / Updated2003-12-02/2003-12-02
Genomic Location
Chromosome (arm)2RRecombination map
Cytogenetic map47C5-47C5Sequence location2R:6,774,320..6,780,696 [+]
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 CG30020 (FBgn0050020). It has the cytological map location 47C5. Its sequence location is 2R:6774320..6780696. Its molecular function is described as: nucleic acid binding; zinc ion binding. The biological processes in which it is involved are not known. 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
47C5-47C5  
Limits computationally determined from genome sequence between P{lacW}l(2)k15826k15826&P{EP}EP471 and P{EP}shnEP2359&P{EP}shnEP644  
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\CG30020 for information on other features
detailed view FBtr0100498 FBtr0100229 FBtr0100230 FBtr0089729 FBtr0089728 FBtr0089727 FBtr0088235 FBtr0088239 FBtr0088236 FBpp0088670 FBpp0088669 FBpp0088668 FBpp0087330 FBpp0087334 FBpp0087331 FBti0053460 FBti0025768 FBti0042089 FBti0028555 FBti0023199 FBti0027344
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
CG30020-RA
FBtr0088235
 NM_136783
  4725
  1309
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
CG30020-PA  
FBpp0087330  
145.9  
1309  
6.14  
  NP_610627
  AAF58732
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
•
Zinc finger, C2H2-type (IPR007087)
Zinc finger, AD-type (IPR012934)
Zinc finger, C2H2-like (IPR015880)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA201748
 
AA246628
 
AA263328
 
AA263985
 
AA390682
 
AA391876
 
AA392594
 
AA439089
 
AA804052
 
AA817336
 
AA817553
 
AA948983
 
AE003828
AAF58732
 
AI455700
 
AI456934
 
AI511829
 
AI512069
 
AI520188
 
AI532120
 
AW943282
 
AW943511
 
AY069600
AAL39745
 
BF490934
 
BF502761
 
BG638742
 
BI170655
 
BI229529
 
BI365713
 
BI366488
 
BI367583
 
BI483791
 
BI485041
 
BI577916
 
BT003576
AAO39580
 
CO270796
 
CO276070
 
CO311203
 
CZ484648
 
CZ484649
 
EC065018
 
EC195420
 
EC197365
 
EC236699
 
EC246382
 
SD07162
 
 
UniProtKB/Swiss-Prot
    UniProtKB/TrEMBL
    Maps to
    Does NOT map to
    Identified with
    (BDGP Project Members, 2000-)
    (BDGP Project Members, 2000-, Hochheimer et al., 2002)
    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 FBtr0100498 FBtr0100229 FBtr0100230 FBtr0089729 FBtr0089728 FBtr0089727 FBtr0088235 FBtr0088239 FBtr0088236
        AI520188
        hide External Data & Images
        Linkouts
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        FlyExpress - Embryonic expression images (BDGP data)
        •
        Show all FlyExpress processed images for CG30020
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Lethality
        Allele
        viable
        Sterility
        Allele
        fertile
        Phenotype manifest in
        Allele
        hide Classical Alleles ( 1 )
        For All Classical Alleles Show

        Allele of CG30020ClassMutagenStocksKnown lesion
        CG30020f021472 --
        hide Alleles Carried on Transgenic Constructs ( 1 )
        For All Alleles Carried on Transgenic Constructs Show

        Allele of CG30020ClassMutagenStocksKnown lesion
        CG30020GD54400 Yes
        hide Aneuploid Aberrations
        Useful deficiency
         
        Useful duplication
         
        Disrupted in
        (Ryder, 2004.4.26)
        hide Transgenic Constructs & Insertions
        Transgenic Constructs
        Type of construct
        Name
        Expression data
        UAS construct
        P{GD5440}
        NA
        Insertions
        Type of insertions
        Name
        Expression data
        miscellaneous insertions
        PBac{WH}CG30020f02147
        NA
        insertion of enhancer trap
        P{lacW}l(2)SH1958SH1958
        No
        hide Related Comments
        Please look at the allele reports for the complete phenotype data
        hide Gene Ontology: Function, Process & Cellular Component ( 3 )
        hide Molecular Function
        CV term
        Evidence
        References
        nucleic acid binding
        inferred from sequence or structural similarity with InterPro:IPR007087
        (FlyBase Genome Annotators, 2002-2003)
        zinc ion binding
        inferred from electronic annotation with InterPro:IPR007087, InterPro:IPR012934, InterPro:IPR015880
        (FlyBase Curators et al., 2004-)
        hide Biological Process
        CV term
        Evidence
        References
        hide Cellular Component
        CV term
        Evidence
        References
        nucleus
        inferred from sequence or structural similarity with InterPro:IPR007087
        (FlyBase Genome Annotators, 2002-2003)
        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
        CG30020 allele
        Gene
        References
        hide External Data
        Linkouts
        BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
        •
        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 ( 3 )
        Harvard
        -
        PBac{WH}CG30020f02147
        Szeged
        -
        P{lacW}l(2)SH1958SH1958
        Bloomington
        18519
        w1118; PBac{WH}CG30020f02147
        hide Genomic Clones ( 1 )
        hide cDNA Clones ( 33 )
        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
        Source for merge of: CG12941 CG18353 Annotations CG12941, CG18353 merged as CG30020 in release 3 of the genome annotation.
        (FlyBase Genome Annotators, 2002-2003)
        Source for merge of: CG30020 BEST:LD40262
        (Rana, 2004.7.8)
        Additional comments
        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
        •
        Zinc finger, C2H2-type (IPR007087)
        Zinc finger, AD-type (IPR012934)
        Zinc finger, C2H2-like (IPR015880)
        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
        •
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        FlyExpress - Embryonic expression images (BDGP data)
        •
        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 ( 5 )
        Reported As
        Symbol Synonym
        BEST:LD40262
         
        CG12941
        (Brody et al., 2002, )
        CG18353
        (Stathopoulos et al., 2002, )
        CG30020
         
        p190
        (Hochheimer et al., 2002, Hochheimer et al., 2002)
        Name Synonym
        CG30020
         
        Secondary FlyBase IDs
        • FBgn0033567
        • FBgn0033568
        • FBgn0065031
        hide References ( 18 )
        Research paper
        Brody et al., 2002, Mech. Dev. 113(1): 41--59
        Identification of novel Drosophila neural precursor genes using a differential embryonic head cDNA screen. [FBrf0147137]
        Hochheimer et al., 2002, Nature 420(6914): 439--445
        TRF2 associates with DREF and directs promoter-selective gene expression in Drosophila. [FBrf0155489]
        Stathopoulos et al., 2002, Cell 111(5): 687--701
        Whole-genome analysis of dorsal-ventral patterning in the Drosophila embryo. [FBrf0155522]
        Supplementary material
        Dietzl et al., 2007, Nature 448(7150):
        Supplementary Table 1. [FBrf0202579]
        Giot et al., 2003, Science 302(5651):
        Tables S1 to S7. [FBrf0166452]
        Oh et al., 2003, Genetics 163(1):
        Table S1. [FBrf0157097]
        Hochheimer et al., 2002, Nature 420(6914):
        Table 1 Composition of the TRF2 complex and identity of the subunits. [FBrf0155356]
        Personal communication to FlyBase
        Bloomington Drosophila Stock Center, 2004.11.6, Exelixis insertion alleles that are not in FlyBase.
        Exelixis insertion alleles that are not in FlyBase. [FBrf0179797]
        FlyBase Curators et al., 2004-, Gene Ontology annotation in FlyBase through association of InterPro records with GO terms.
        Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. [FBrf0174215]
        Rana, 2004.7.8, BLAST analysis.
        BLAST analysis. [FBrf0178762]
        Ryder, 2004.4.26, Exelixis CG deletion data.
        Exelixis CG deletion data. [FBrf0184335]
        FlyBase analysis
        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, 1992-, FlyBase curation
        FlyBase curation. [FBrf0105495]
        Computer file
        Gene Disruption Project members and Exelixis, 2005, Genomic mapping of Exelixis insertion collection.
        Genomic mapping of Exelixis insertion collection. [FBrf0184340]
        Gene Disruption Project members, 2001-, [title not yet available]
        [title not yet available] [FBrf0132177]
        BDGP Project Members, 2000-, Berkeley Drosophila Genome Project.
        Berkeley Drosophila Genome Project. [FBrf0125078]
        Automatic genome annotation
        FamiliarityBreedsContempt, 1999.11, [Annotations performed at the Celera Jamboreee.]
        [Annotations performed at the Celera Jamboreee.] [FBrf0126705]
        Curated genome annotation
        Lei, 1999.11, [Annotations performed at the Celera Jamboreee.]
        [Annotations performed at the Celera Jamboreee.] [FBrf0126680]