A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\Rtc1

General Information
SymbolDmel\Rtc1SpeciesD. melanogaster
NameRtc1Annotation symbolCG11130
Feature typeprotein_coding_geneFlyBase IDFBgn0020909
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)XRecombination map1-
Cytogenetic map12B10-12C1Sequence locationX:13,651,210..13,652,634 [+]
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 Rtc1 (CG11130, FBgn0020909). It has the cytological map location 12B10-12C1. Its sequence location is X:13651210..13652634. Its molecular function is described as RNA-3'-phosphate cyclase activity. The biological processes in which it is involved are not known. One allele is 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
12B10-12C1  
Limits computationally determined from genome sequence between P{EP}gEP514 and P{EP}EP1354&P{EP}EP790  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
Experimentally Determined Recombination Data
Location
1-
 
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
Overall orientation not stated: Rtc1+ Yp3+
(Yan, 1999.9.13)
hide Gene Model & Products
Please see the GBrowse view of Dmel\Rtc1 for information on other features
detailed view FBtr0112981 FBtr0073840 FBtr0073839 FBtr0073820 FBtr0073821 FBpp0073670 FBpp0073651 FBpp0073652 FBti0028669 FBti0029076 FBti0039605 FBti0033899 FBti0029691 FBti0035490 FBti0041763 FBti0075935 FBti0034135 FBti0068314 FBti0041110
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
Rtc1-RA
FBtr0073820
 NM_132691
  1306
  384
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
Rtc1-PA  
FBpp0073651  
42.1  
384  
8.16  
  NP_572919
  AAF48313
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 3'-terminal phosphate cyclase (IPR000228)
RNA 3'-terminal phosphate cyclase/enolpyruvate transferase, alpha/beta (IPR013792)
RNA 3'-terminal phosphate cyclase, insert region (IPR013796)
RNA 3'-terminal phosphate cyclase-like, eukaryotic (IPR016443)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA246457
 
AA694859
 
AA697029
 
AA802132
 
AA803152
 
AE003493
AAF48313
 
AI531728
 
AW944274
 
AY058762
AAL13991
 
BI237966
 
CO187169
 
CO262065
 
CO273649
 
CO274912
 
CO298403
 
CO311213
 
EC082865
 
EC202182
 
EC206319
 
EC209362
 
EC211261
 
EC217849
 
EC242480
 
EC251089
 
X04754
CAB55765
 
 
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 FBtr0112981 FBtr0073840 FBtr0073839 FBtr0073820 FBtr0073821
        AI531728
        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
        •
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Phenotype manifest in
        Allele
        hide Classical Alleles ( 0 )
        For All Classical Alleles Show

        Allele of Rtc1ClassMutagenStocksKnown lesion
        hide Alleles Carried on Transgenic Constructs ( 1 )
        For All Alleles Carried on Transgenic Constructs Show

        Allele of Rtc1ClassMutagenStocksKnown lesion
        Rtc1GD72081 Yes
        hide Aneuploid Aberrations
        Useful deficiency
         
        Disrupted in
        (Ryder, 2004.4.26)
        hide Transgenic Constructs & Insertions
        Transgenic Constructs
        Type of construct
        Name
        Expression data
        UAS construct
        P{GD7208}
        NA
        Insertions
        Type of insertions
        Name
        Expression data
        hide Related Comments
        Please look at the allele reports for the complete phenotype data
        hide Gene Ontology: Function, Process & Cellular Component ( 2 )
        hide Molecular Function
        CV term
        Evidence
        References
        RNA-3'-phosphate cyclase activity
        inferred from sequence or structural similarity with UniProtKB:Q08096
        (FlyBase, 1992-)
        hide Biological Process
        CV term
        Evidence
        References
        hide Cellular Component
        CV term
        Evidence
        References
        nucleus
        non-traceable author statement
        (Swiss-Prot Project Members, 1997.2.1)
        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
        Rtc1 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 ( 1 )
        VDRC
        v18145
        w1118; P{GD7208}v18145/TM3
        hide Genomic Clones ( 1 )
        hide cDNA Clones ( 13 )
        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
        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/Swiss-Prot
        •
        Other Crossreferences
        InterPro domains - A database of protein families, domains, and functional sites
        •
        RNA 3'-terminal phosphate cyclase (IPR000228)
        RNA 3'-terminal phosphate cyclase/enolpyruvate transferase, alpha/beta (IPR013792)
        RNA 3'-terminal phosphate cyclase, insert region (IPR013796)
        RNA 3'-terminal phosphate cyclase-like, eukaryotic (IPR016443)
        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
        •
        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
        •
        University of Chicago Dev. Expression
        •
        hide Synonyms & Secondary IDs ( 2 )
        Reported As
        Symbol Synonym
        CG11130
         
        Rtc1
         
        Name Synonym
        Rtc1
         
        Secondary FlyBase IDs
          hide References ( 7 )
          Research paper
          Yan et al., 1987, Nucleic Acids Res. 15: 67--85
          Sequence homologies among the three yolk polypeptide (Yp) genes in Drosophila melanogaster. [FBrf0047113]
          Personal communication to FlyBase
          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]
          Ryder, 2004.4.26, Exelixis CG deletion data.
          Exelixis CG deletion data. [FBrf0184335]
          FlyBase analysis
          FlyBase, 1992-, FlyBase curation
          FlyBase curation. [FBrf0105495]
          DNA/RNA sequence record
          Yan, 1999.9.13, GenBank/EMBL/DDBJ: X04754
          Drosophila yolk polypeptide gene YP3. [FBrf0122265]
          Protein sequence record
          Swiss-Prot Project Members, 1997.2.1, UniProtKB: P56175
          PROBABLE RNA 3'-TERMINAL PHOSPHATE CYCLASE (EC 6.5.1.4) (RNA-3'- PHOSPHATE CYCLASE) (RNA CYCLASE) (FRAGMENT). [FBrf0124133]
          Computer file
          BDGP Project Members, 2000-, Berkeley Drosophila Genome Project.
          Berkeley Drosophila Genome Project. [FBrf0125078]