A Database of Drosophila Genes & Genomes

FB2012_01, released January 20th, 2012
 

Gene Dmel\CG5869

General Information
SymbolDmel\CG5869SpeciesD. melanogaster
NameAnnotation symbolCG5869
Feature typeprotein_coding_geneFlyBase IDFBgn0028894
Gene Model StatusCurrent Stock availability 3 publicly available
Also Known AsBG:DS02740.9, DS02740.9
Genomic Location
Chromosome (arm)2LRecombination map
Cytogenetic map35F1-35F1Sequence location2L:16,301,656..16,302,952 [-]

Genomic Maps

GBrowse View Help
modENCODE 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 Dmel\CG5869 (FBgn0028894). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: actin binding. Based on sequence similarity, it is predicted to be involved in the biological process: gliogenesis. 5 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide. Protein features are: Actin-binding, cofilin/tropomyosin type; Glia maturation factor beta. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-18 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Expression at high levels in the following post-embryonic organs or tissues: larval midgut. Expression at moderate levels in the following post-embryonic organs or tissues: larval central nervous system, adult midgut, larval hindgut, adult heart, larval fat body, larval/adult salivary gland, larval trachea, adult female reproductive system, adult male reproductive system, larval carcass. Comments on Affy2 ProbeSet: ProbeSet 1628987_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of CG5869. Gene sequence location is 2L:16301656..16302952.

hide 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.
atom feed
FB2011_10
FB2012_01
Sequence features
BKN45043
HFA01928
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
35F1-35F1  
Limits computationally determined from genome sequence between P{lacW}heixk11403&P{lacW}heixk12401 and P{EP}fzyEP1028&P{lacW}mRpL4k14608  
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\CG5869 for information on other features
To submit a correction to a gene model please use the Contact FlyBase form
detailed view FBtr0080852 FBtr0080829 FBtr0080851 FBtr0080830 FBpp0080387 FBpp0080408 FBpp0080388 FBti0004837 FBti0036514 FBti0111295 FBti0114803 FBti0124821 FBti0124822_2 FBti0124822_1 FBti0010861
Comments on Gene Model
DGC clone appears problematic (SD03793): incomplete CDS.
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
CG5869-RA
FBtr0080851
 NM_135943
  1017
  138
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
CG5869-PA  
FBpp0080408  
16.5  
138  
4.64  
  NP_609787
  AAF53517
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Actin-binding, cofilin/tropomyosin type (IPR002108)
Glia maturation factor beta (IPR011171)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AE014134
AAF53517
 
AI532325
 
AW944327
 
AY118642
AAM50011
 
BI171482
 
BI216781
 
BI243017
 
BI362192
 
BT014645
 
CK661985
 
CO152716
 
CO264960
 
CO291685
 
CO293575
 
CO297852
 
CO306719
 
CO312862
 
CO331254
 
CO332492
 
CO340215
 
EC061340
 
EC063505
 
EC063784
 
EC065879
 
EC216616
 
EC218011
 
EC248399
 
EC257027
 
EC265376
 
GH753368
 
GH755781
 
GH757777
 
GH771547
 
GH775637
 
GH789345
 
GH807233
 
GH822757
 
GH828855
 
GH833641
 
GH864981
 
GH865285
 
GH901972
 
GH926346
 
GH933495
 
 
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 CG17328-RA CG5869-RA c(2)M-RA
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
[an error occurred while processing this directive]
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, with Scer\GAL4pnr-MD237
Phenotype manifest in
Allele
hide Classical Alleles ( 1 )
For All Classical Alleles Show

Allele of CG5869ClassMutagenStocksKnown lesion
CG5869G28851 --
hide Alleles Carried on Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show

Allele of CG5869ClassMutagenStocksKnown lesion
CG5869GD105591 Yes
CG5869KK1087431 Yes
CG5869t12.10 Yes
CG5869t14.20 Yes
hide Aneuploid Aberrations
hide Transgenic Constructs & Insertions
Transgenic Constructs
Type of construct
Name
Expression data
UAS construct
P{GD10559}
NA
P{KK108743}
NA
Insertions
Type of insertions
Name
Expression data
insertion of mobile activating element
P{EP}CG5869G2885
NA
hide Gene Ontology: Function, Process & Cellular Component ( 3 unique terms )
hide Terms Based on Experimental Evidence ( 0 terms )
hide Terms Based on Predictions or Assertions ( 3 terms )
Molecular Function
CV term
Evidence
References
actin binding
inferred from electronic annotation with InterPro:IPR002108
(FlyBase Curators et al., 2004-)
inferred from sequence or structural similarity
(Ashburner et al., 1999)
Biological Process
CV term
Evidence
References
gliogenesis
inferred from sequence or structural similarity with EMBL:BC005359
(Mi et al., 2001.12.13)
Cellular Component
CV term
Evidence
References
intracellular
inferred from electronic annotation with InterPro:IPR002108
(FlyBase Curators et al., 2004-)
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
CG5869 allele
Gene
References
hide External Data
Linkouts
BioGRID - A database of protein and genetic interactions
•
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 ( 3 )
Bloomington
26908
y1 w*; P{EP}CG5869G2885
VDRC
v101994
P{KK108743}VIE-260B
v34145
w1118; P{GD10559}v34145/CyO
hide Genomic Clones ( 1 )

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
hide cDNA Clones ( 40 )

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
Source for merge of: BG:DS02740.9 BcDNA:SD03793
(FlyBase, 1996-)
Additional comments
Source for merge of BG:DS02740.9 BcDNA:SD03793 was a shared cDNA (date:020730).
(FlyBase, 1996-)
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
•
Actin-binding, cofilin/tropomyosin type (IPR002108)
Glia maturation factor beta (IPR011171)
Linkouts
BioGRID - A database of protein and genetic interactions
•
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 ( 4 )
Reported As
Symbol Synonym
BcDNA:SD03793
 
BG:DS02740.9
(Ashburner et al., 1999.10.12, Ashburner et al., 1999, Ashburner et al., 1999, Giot et al., 2003, )
CG5869
(Keleman et al., 2009.8.5)
DS02740.9
(Reese et al., 2000, Reese et al., 2000)
Name Synonym
Secondary FlyBase IDs
  • FBgn0062894
hide References ( 18 )
Research paper
Willingham and Keil, 2004, Mech. Dev. 121(10): 1289--1297
A tissue specific cytochrome P450 required for the structure and function of Drosophila sensory organs. [FBrf0179737]
Reese et al., 2000, Genome Res. 10(4): 483--501
Genome annotation assessment in Drosophila melanogaster. [FBrf0127290]
Reese et al., 2000, Genome Res. 10(4): 529--538
Genie - Gene finding in Drosophila melanogaster. [FBrf0127289]
Ashburner et al., 1999, Genetics 153(1): 179--219
An exploration of the sequence of a 2.9-Mb region of the genome of Drosophila melanogaster. The Adh region. [FBrf0111326]
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]
Giot et al., 2003, Science 302(5651):
Tables S1 to S7. [FBrf0166452]
Ashburner et al., 1999, Genetics 153(1):
Table S2. Genes, known and predicted, that have been determined on the sequence of the Adh region. All genes are protein coding, unless indicated tscan in the prediction column, these are tRNAs. [FBrf0112151]
Ashburner et al., 1999, Genetics 153(1):
Table S3. A classified summary of the inferred function of the products of 91 genes in the Adh region. [FBrf0112152]
Personal communication to FlyBase
Bellen, 2009.2.6, BDGP_2009_0206.GenExel.xml
BDGP_2009_0206.GenExel.xml [FBrf0206623]
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]
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]
Mi et al., 2001.12.13, Corrections to the assignment of GO terms.
Corrections to the assignment of GO terms. [FBrf0141274]
Ashburner et al., 1999.10.12, Adh.
Adh. [FBrf0112153]
FlyBase analysis
FlyBase, 1996-, FlyBase inference based on genome sequence analysis.
FlyBase inference based on genome sequence analysis. [FBrf0104946]
Computer file
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]