A Database of Drosophila Genes & Genomes

FB2012_01, released January 20th, 2012
 

Gene Dmel\CG30499

General Information
SymbolDmel\CG30499SpeciesD. melanogaster
NameAnnotation symbolCG30499
Feature typeprotein_coding_geneFlyBase IDFBgn0050499
Gene Model StatusCurrent Stock availability 4 publicly available
Also Known AsCG1364
Genomic Location
Chromosome (arm)2RRecombination map
Cytogenetic map43D7-43D7Sequence location2R:3,451,939..3,453,334 [-]

Genomic Maps

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modENCODE GBrowse
detailed view
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Automatically generated summary

See sections below for more information
This gene is referred to in FlyBase by the symbol Dmel\CG30499 (FBgn0050499). It is a protein_coding_gene from Drosophila melanogaster. An electronic pipeline based on InterPro domains suggests that it has the molecular function: ribulose-phosphate 3-epimerase activity. An electronic pipeline based on InterPro domains suggests that it is involved in the biological process: carbohydrate metabolic process. 5 alleles are reported. No phenotypic data is available. It has 3 annotated transcripts and 3 annotated polypeptides. Protein features are: Aldolase-type TIM barrel; Ribulose-phosphate 3-epimerase; Ribulose-phosphate binding barrel. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderately high expression. Peak expression observed within 00-12 hour embryonic stages, in stages of adults of both sexes. Summary of FlyAtlas Anatomical Expression Data: Expression at high levels in the following post-embryonic organs or tissues: adult heart, adult testis. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval central nervous system, adult crop, adult midgut, adult hindgut, adult Malpighian tubules, larval/adult fat body, larval salivary gland, larval trachea, adult female reproductive system, adult male accessory gland, larval/adult carcass. Comments on Affy2 ProbeSet: ProbeSet 1638942_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of CG30499. Gene sequence location is 2R:3451939..3453334.

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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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atom feed
FB2011_10
Transcripts
CG30499-RC
CG30499-RB
Polypeptides
CG30499-PB
CG30499-PC
FB2012_01
Sequence features
HFA06407
BKN28231
All updates Click here to see a list of all updates to this record from FB2010_08 and on.
hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
43D7-43D7  
Limits computationally determined from genome sequence between P{EP}CG1600EP398 and P{PZ}scra03427&P{EP}EP2179  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
hide Gene Model & Products
Please see the GBrowse view of Dmel\CG30499 for information on other features
To submit a correction to a gene model please use the Contact FlyBase form
detailed view FBtr0310025 FBtr0088954 FBtr0310026 FBtr0088953 FBtr0088910 FBtr0310024 FBpp0301728 FBpp0088028 FBpp0301729 FBpp0088027 FBpp0087984 FBpp0301727 FBti0066471 FBti0128134 FBti0047586 FBti0051498 FBti0042457 FBti0125011_2 FBti0125011_1 FBti0047466 FBti0100141 FBti0023575 FBti0107720 FBti0107741 FBti0108733 FBti0111570 FBti0056908 FBti0077106 FBti0036836 FBti0038938 FBti0102251
Comments on Gene Model
Gene model reviewed during 5.42
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
CG30499-RA
FBtr0088954
 NM_136454
  1058
  221
CG30499-RB
FBtr0310025
 
  897
  221
CG30499-RC
FBtr0310026
 
  1138
  221
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
CG30499-PA  
FBpp0088028  
24.2  
221  
5.06  
  NP_610298
  AAM71098
CG30499-PB  
FBpp0301728  
24.2  
221  
5.06  
 
 
CG30499-PC  
FBpp0301729  
24.2  
221  
5.06  
 
 
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Ribulose-phosphate 3-epimerase (IPR000056)
Ribulose-phosphate binding barrel (IPR011060)
Aldolase-type TIM barrel (IPR013785)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA140933
 
AA140934
 
AA247014
 
AA264878
 
AA390935
 
AA392924
 
AA951510
 
AE013599
AAM71098
 
AI406198
 
AW942078
 
AY061110
AAL28658
 
BE977885
 
BI163687
 
BI213708
 
BI214859
 
BI239584
 
BI240401
 
BI241426
 
BI241504
 
BI242155
 
BI363410
 
BI363475
 
BI367577
 
BI485982
 
BI486801
 
BI578921
 
BI612751
 
BP556430
 
BP559924
 
BP559925
 
CO186983
 
CO265467
 
CO267748
 
CO272971
 
CO298619
 
CO306260
 
CO306557
 
CO314763
 
DQ440331
 
EC060748
 
EC074153
 
EC208666
 
EC210593
 
EC214628
 
EC229332
 
EC232383
 
EC232398
 
EC237659
 
EC244649
 
EC248717
 
 
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL
hide 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
hide External Data
Linkouts
Crossreferences
hide Expression Data
hideTranscript Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
hidePolypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
hide High-Throughput Expression Data
or
Untitled Document detailed view CG30499-RB CG30499-RA CG30499-RC boca-RA
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
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modENCODE Temporal Expression Data (Graveley et al., 2011)
FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
hide Expression Clusters
A cluster of genes with similar mRNA expression dynamics across development.
(The modENCODE Consortium, 2010)
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
•
hide Alleles & Phenotypes
hide Summary of Allele Phenotypes
Lethality
Allele
viable
viable, with Scer\GAL4pnr-MD237
Sterility
Allele
fertile
Phenotype manifest in
Allele
hide Classical Alleles ( 3 )
For All Classical Alleles Show

Allele of CG30499ClassMutagenStocksKnown lesion
CG30499f054822 --
CG30499G21861 --
CG30499e00021
0 --
hide Alleles Carried on Transgenic Constructs ( 2 )
For All Alleles Carried on Transgenic Constructs Show

Allele of CG30499ClassMutagenStocksKnown lesion
CG30499GD86771 Yes
CG30499KK1082310 Yes
hide Aneuploid Aberrations
Disrupted in
(Ryder, 2004.4.26)
(Ryder, 2004.4.26)
hide Transgenic Constructs & Insertions
Transgenic Constructs
Type of construct
Name
Expression data
UAS construct
P{GD8677}
NA
P{KK108231}
NA
Insertions
Type of insertions
Name
Expression data
miscellaneous insertions
PBac{RB}CG30499e00021
NA
PBac{WH}CG30499f05482
NA
insertion of mobile activating element
P{EP}CG30499G2186
NA
hide Gene Ontology: Function, Process & Cellular Component ( 2 unique terms )
hide Terms Based on Experimental Evidence ( 0 terms )
hide Terms Based on Predictions or Assertions ( 2 terms )
Molecular Function
CV term
Evidence
References
ribulose-phosphate 3-epimerase activity
inferred from electronic annotation with InterPro:IPR000056
(FlyBase Curators et al., 2004-)
Biological Process
CV term
Evidence
References
carbohydrate metabolic process
inferred from electronic annotation with InterPro:IPR000056
(FlyBase Curators et al., 2004-)
Cellular Component ( 0 terms)
hide Sequence Ontology: Class of Gene
nuclear_gene
 
protein_coding_gene
 
hide Interactions & Pathways
hide Summary of Physical Interactions
Protein-protein
Interacting group
Assay
References
hide Summary of Genetic Interactions
Interacts with
Please look at the allele data for full details of the genetic interactions
CG30499 allele
Gene
References
unspecified
pbl
(Gregory et al., 2007)
hide External Data
Linkouts
DroID - A comprehensive database of gene and protein interactions.
•
InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets.
•
hide Orthologs
Genome-wide drosophilid orthologs
Curated drosophilid orthologs
 
Linkouts
InParanoid A subset of ortholog calls from InParanoid.
•
OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs.
•
hide Stocks & Reagents
hide Stocks Listed in FlyBase ( 4 )
Bloomington
18872
w1118; PBac{WH}CG30499f05482
29680
y1 w*; P{EP}CG30499G2186
Harvard
-
PBac{WH}CG30499f05482
VDRC
v25016
w1118; P{GD8677}v25016
hide Genomic Clones ( 2 )

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
hide cDNA Clones ( 45 )

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
Linkouts
DRSC - Results from RNAi screens.
•
GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents
•
hide Antibody Information
hide Other Information
hide Discoverer
hide Etymology
hide Identification
hide Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Annotation CG1364 split into CG30499 and CG30498 (boca) in release 3 of the genome annotation.
(FlyBase Genome Annotators, 2002-2003)
hide Other Comments
hide External Crossreferences & Linkouts
Sequence Crossreferences
RefSeq (Transcripts)
•
RefSeq (Proteins)
•
DDBJ / EMBL / GenBank
•
Entrez Gene - A searchable database of RefSeq genes.
•
UniProtKB/TrEMBL
•
Other Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Ribulose-phosphate 3-epimerase (IPR000056)
Ribulose-phosphate binding barrel (IPR011060)
Aldolase-type TIM barrel (IPR013785)
Linkouts
DroID - A comprehensive database of gene and protein interactions.
•
DRSC - Results from RNAi screens.
•
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
•
GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents
•
InParanoid A subset of ortholog calls from InParanoid.
•
InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets.
•
modMine - Data generated by the modENCODE project.
•
OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs.
•
hide Synonyms & Secondary IDs ( 2 )
Reported As
Symbol Synonym
CG1364
(Holdener, 2000.7.28, BDGP Project Members, 2000-, )
CG30499
(Gregory et al., 2007, Fujikawa et al., 2009, Keleman et al., 2009.8.5)
Name Synonym
Secondary FlyBase IDs
  • FBgn0033193
hide References ( 15 )
Research paper
Fujikawa et al., 2009, Gene 446(1): 11--17
Characteristics of genes up-regulated and down-regulated after 24 h starvation in the head of Drosophila. [FBrf0208557]
Gregory et al., 2007, Fly 1(1): 13--22
A Drosophila overexpression screen for modifiers of Rho signalling in cytokinesis. [FBrf0199094]
Supplementary material
The modENCODE Consortium, 2010, Science 330(6012):
DataS14: Gene co-expression clusters. [FBrf0213979]
Mummery-Widmer et al., 2009, Nature 458(7241):
Supplementary Table 2 - Genome-wide bristle screen results. [FBrf0214518]
Personal communication to FlyBase
Bellen, 2009.12.18, BDGP_2009_1221.GenExel.xml
BDGP_2009_1221.GenExel.xml [FBrf0209716]
Keleman et al., 2009.8.5, RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center
RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0208510]
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]
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]
Ryder, 2004.4.26, Exelixis CG deletion data.
Exelixis CG deletion data. [FBrf0184335]
Holdener, 2000.7.28, FlyBase error report for CG1364 on Fri Jul 28 13:35:16 2000.
FlyBase error report for CG1364 on Fri Jul 28 13:35:16 2000. [FBrf0131065]
FlyBase analysis
FlyBase Curators, 2008, Insertion identifiers and alleles based on genomic location of insertions with respect to gene annotations.
Insertion identifiers and alleles based on genomic location of insertions with respect to gene annotations. [FBrf0202955]
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]
Computer file
BDGP Project Members, 2000-, Berkeley Drosophila Genome Project.
Berkeley Drosophila Genome Project. [FBrf0125078]