A Database of Drosophila Genes & Genomes

FB2012_01, released January 20th, 2012
 

Gene Dmel\CG4053

General Information
SymbolDmel\CG4053SpeciesD. melanogaster
NameAnnotation symbolCG4053
Feature typeprotein_coding_geneFlyBase IDFBgn0038482
Gene Model StatusCurrent Stock availability 4 publicly available
Genomic Location
Chromosome (arm)3RRecombination map
Cytogenetic map89F1-89F1Sequence location3R:12,957,018..12,957,878 [-]

Genomic Maps

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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\CG4053 (FBgn0038482). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: serine-type endopeptidase activity. It is reported to be involved in the biological process: proteolysis. 3 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide. Protein features are: Peptidase S1/S6, chymotrypsin/Hap; Peptidase S1/S6, chymotrypsin/Hap, active site; Peptidase S1A, chymotrypsin-type; Peptidase cysteine/serine, trypsin-like. Summary of modENCODE Temporal Expression Profile: No temporal expression data available due to processing error. This will be corrected the next time these data and summaries are processed. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: larval/adult midgut. Comments on Affy2 ProbeSet: ProbeSet 1634834_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of CG4053. Gene sequence location is 3R:12957018..12957878.

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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
FB2012_01
Sequence features
HFA15538
BKN25226
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
89F1-89F1  
Limits computationally determined from genome sequence between P{EP}CG5208EP562&P{EP}DadEP3196 and P{PZ}l(3)0788207882  
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\CG4053 for information on other features
To submit a correction to a gene model please use the Contact FlyBase form
detailed view FBtr0083417 FBtr0303413 FBtr0300060 FBpp0082858 FBpp0292474 FBpp0289337 FBti0075387
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
CG4053-RB
FBtr0303413
 NM_142344
  798
  265
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
CG4053-PB  
FBpp0292474  
29.7  
265  
4.85  
  NP_650601
  AAF55394
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Peptidase S1/S6, chymotrypsin/Hap (IPR001254)
Peptidase S1A, chymotrypsin-type (IPR001314)
Peptidase cysteine/serine, trypsin-like (IPR009003)
Peptidase S1/S6, chymotrypsin/Hap, active site (IPR018114)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AE014297
AAF55394
 
BT125108
 
 
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 CG17475-RA CG4053-RB CG31266-RB
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.

FlyAtlas Anatomical Expression Data for FBgn0038482


   Styles
Linear
Logarithmic
Heatmap
Back-to-back
   Scales
max expr for FBgn0038482
Moderate expression bin max
High level expression bin max
Very high expression bin max

Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: larval/adult midgut.
[download data (TSV)]

Guide to FlyAtlas expression level colors
 
 No expression (0 - 9.999)
 
 Low expression (10 - 99.999)
 
 Moderate expression (100 - 499.999)
 
 High level expression (500 - 999.999)
 
 Very high expression (1000 - 25000)

Linear, scaled to maximum FBgn0038482 expression level
Tissue   Expression Level
Larval Central Nervous System
 
 1.8
Larval Midgut
 
 425
Larval Hindgut
 
 3.3
Larval Malpighian Tubules
 
 2.3
Larval Fat Body
 
 2
Larval Salivary Gland
 
 4.3
Larval Trachea
 
 1.225
Larval Carcass
 
 2.125
Adult Head
 
 1.5
Adult Eye
 
 0.75
Adult Brain
 
 2.6
Adult Thoracic-Abdominal Ganglion
 
 1.5
Adult Crop
 
 3.5
Adult Midgut
 
 490.7
Adult Hindgut
 
 84.3
Adult Malpighian Tubules
 
 5.9
Adult Fat Body
 
 5.1
Adult Salivary Gland
 
 7
Adult Heart
 
 2.625
Adult VirginFemale Spermatheca
 
 4.3
Adult InseminatedFemale Spermatheca
 
 4.5
Adult Ovary
 
 1.2
Adult Testis
 
 1.8
Adult Male Accessory Gland
 
 2.6
Adult Carcass
 
 7.8
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
Linear, scaled to Moderate expression
Tissue   Expression Level
Larval Central Nervous System
 
 1.8
Larval Midgut
 
 425
Larval Hindgut
 
 3.3
Larval Malpighian Tubules
 
 2.3
Larval Fat Body
 
 2
Larval Salivary Gland
 
 4.3
Larval Trachea
 
 1.225
Larval Carcass
 
 2.125
Adult Head
 
 1.5
Adult Eye
 
 0.75
Adult Brain
 
 2.6
Adult Thoracic-Abdominal Ganglion
 
 1.5
Adult Crop
 
 3.5
Adult Midgut
 
 490.7
Adult Hindgut
 
 84.3
Adult Malpighian Tubules
 
 5.9
Adult Fat Body
 
 5.1
Adult Salivary Gland
 
 7
Adult Heart
 
 2.625
Adult VirginFemale Spermatheca
 
 4.3
Adult InseminatedFemale Spermatheca
 
 4.5
Adult Ovary
 
 1.2
Adult Testis
 
 1.8
Adult Male Accessory Gland
 
 2.6
Adult Carcass
 
 7.8
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
Linear, scaled to High level expression
Tissue   Expression Level
Larval Central Nervous System
 
 1.8
Larval Midgut
 
 425
Larval Hindgut
 
 3.3
Larval Malpighian Tubules
 
 2.3
Larval Fat Body
 
 2
Larval Salivary Gland
 
 4.3
Larval Trachea
 
 1.225
Larval Carcass
 
 2.125
Adult Head
 
 1.5
Adult Eye
 
 0.75
Adult Brain
 
 2.6
Adult Thoracic-Abdominal Ganglion
 
 1.5
Adult Crop
 
 3.5
Adult Midgut
 
 490.7
Adult Hindgut
 
 84.3
Adult Malpighian Tubules
 
 5.9
Adult Fat Body
 
 5.1
Adult Salivary Gland
 
 7
Adult Heart
 
 2.625
Adult VirginFemale Spermatheca
 
 4.3
Adult InseminatedFemale Spermatheca
 
 4.5
Adult Ovary
 
 1.2
Adult Testis
 
 1.8
Adult Male Accessory Gland
 
 2.6
Adult Carcass
 
 7.8
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
 Very high 
Linear, scaled to Very high expression
Tissue   Expression Level
Larval Central Nervous System
 
 1.8
Larval Midgut
 
 425
Larval Hindgut
 
 3.3
Larval Malpighian Tubules
 
 2.3
Larval Fat Body
 
 2
Larval Salivary Gland
 
 4.3
Larval Trachea
 
 1.225
Larval Carcass
 
 2.125
Adult Head
 
 1.5
Adult Eye
 
 0.75
Adult Brain
 
 2.6
Adult Thoracic-Abdominal Ganglion
 
 1.5
Adult Crop
 
 3.5
Adult Midgut
 
 490.7
Adult Hindgut
 
 84.3
Adult Malpighian Tubules
 
 5.9
Adult Fat Body
 
 5.1
Adult Salivary Gland
 
 7
Adult Heart
 
 2.625
Adult VirginFemale Spermatheca
 
 4.3
Adult InseminatedFemale Spermatheca
 
 4.5
Adult Ovary
 
 1.2
Adult Testis
 
 1.8
Adult Male Accessory Gland
 
 2.6
Adult Carcass
 
 7.8
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
 Very high 
log, scaled to maximum FBgn0038482 expression level
Tissue   Expression Level
Larval Central Nervous System
 
 1.8
Larval Midgut
 
 425
Larval Hindgut
 
 3.3
Larval Malpighian Tubules
 
 2.3
Larval Fat Body
 
 2
Larval Salivary Gland
 
 4.3
Larval Trachea
 
 1.225
Larval Carcass
 
 2.125
Adult Head
 
 1.5
Adult Eye
 
 0.75
Adult Brain
 
 2.6
Adult Thoracic-Abdominal Ganglion
 
 1.5
Adult Crop
 
 3.5
Adult Midgut
 
 490.7
Adult Hindgut
 
 84.3
Adult Malpighian Tubules
 
 5.9
Adult Fat Body
 
 5.1
Adult Salivary Gland
 
 7
Adult Heart
 
 2.625
Adult VirginFemale Spermatheca
 
 4.3
Adult InseminatedFemale Spermatheca
 
 4.5
Adult Ovary
 
 1.2
Adult Testis
 
 1.8
Adult Male Accessory Gland
 
 2.6
Adult Carcass
 
 7.8
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
log, scaled to Moderate expression
Tissue   Expression Level
Larval Central Nervous System
 
 1.8
Larval Midgut
 
 425
Larval Hindgut
 
 3.3
Larval Malpighian Tubules
 
 2.3
Larval Fat Body
 
 2
Larval Salivary Gland
 
 4.3
Larval Trachea
 
 1.225
Larval Carcass
 
 2.125
Adult Head
 
 1.5
Adult Eye
 
 0.75
Adult Brain
 
 2.6
Adult Thoracic-Abdominal Ganglion
 
 1.5
Adult Crop
 
 3.5
Adult Midgut
 
 490.7
Adult Hindgut
 
 84.3
Adult Malpighian Tubules
 
 5.9
Adult Fat Body
 
 5.1
Adult Salivary Gland
 
 7
Adult Heart
 
 2.625
Adult VirginFemale Spermatheca
 
 4.3
Adult InseminatedFemale Spermatheca
 
 4.5
Adult Ovary
 
 1.2
Adult Testis
 
 1.8
Adult Male Accessory Gland
 
 2.6
Adult Carcass
 
 7.8
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
log, scaled to High level expression
Tissue   Expression Level
Larval Central Nervous System
 
 1.8
Larval Midgut
 
 425
Larval Hindgut
 
 3.3
Larval Malpighian Tubules
 
 2.3
Larval Fat Body
 
 2
Larval Salivary Gland
 
 4.3
Larval Trachea
 
 1.225
Larval Carcass
 
 2.125
Adult Head
 
 1.5
Adult Eye
 
 0.75
Adult Brain
 
 2.6
Adult Thoracic-Abdominal Ganglion
 
 1.5
Adult Crop
 
 3.5
Adult Midgut
 
 490.7
Adult Hindgut
 
 84.3
Adult Malpighian Tubules
 
 5.9
Adult Fat Body
 
 5.1
Adult Salivary Gland
 
 7
Adult Heart
 
 2.625
Adult VirginFemale Spermatheca
 
 4.3
Adult InseminatedFemale Spermatheca
 
 4.5
Adult Ovary
 
 1.2
Adult Testis
 
 1.8
Adult Male Accessory Gland
 
 2.6
Adult Carcass
 
 7.8
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
 Very high 
log, scaled to Very high expression
Tissue   Expression Level
Larval Central Nervous System
 
 1.8
Larval Midgut
 
 425
Larval Hindgut
 
 3.3
Larval Malpighian Tubules
 
 2.3
Larval Fat Body
 
 2
Larval Salivary Gland
 
 4.3
Larval Trachea
 
 1.225
Larval Carcass
 
 2.125
Adult Head
 
 1.5
Adult Eye
 
 0.75
Adult Brain
 
 2.6
Adult Thoracic-Abdominal Ganglion
 
 1.5
Adult Crop
 
 3.5
Adult Midgut
 
 490.7
Adult Hindgut
 
 84.3
Adult Malpighian Tubules
 
 5.9
Adult Fat Body
 
 5.1
Adult Salivary Gland
 
 7
Adult Heart
 
 2.625
Adult VirginFemale Spermatheca
 
 4.3
Adult InseminatedFemale Spermatheca
 
 4.5
Adult Ovary
 
 1.2
Adult Testis
 
 1.8
Adult Male Accessory Gland
 
 2.6
Adult Carcass
 
 7.8
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
 Very high 
Heatmap
Tissue   Expression Level
Larval Central Nervous System
 
 
Larval Midgut
 
 
Larval Hindgut
 
 
Larval Malpighian Tubules
 
 
Larval Fat Body
 
 
Larval Salivary Gland
 
 
Larval Trachea
 
 
Larval Carcass
 
 
Adult Head
 
 
Adult Eye
 
 
Adult Brain
 
 
Adult Thoracic-Abdominal Ganglion
 
 
Adult Crop
 
 
Adult Midgut
 
 
Adult Hindgut
 
 
Adult Malpighian Tubules
 
 
Adult Fat Body
 
 
Adult Salivary Gland
 
 
Adult Heart
 
 
Adult VirginFemale Spermatheca
 
 
Adult InseminatedFemale Spermatheca
 
 
Adult Ovary
 
 
Adult Testis
 
 
Adult Male Accessory Gland
 
 
Adult Carcass
 
 

FlyAtlas Organ/Tissue Expression, larval vs. adult
Larval Expression Level Tissue Adult Expression Level
 
NA 		 Head
 
 1.5
 
NA 		 Eye
 
 0.75
 
NA 		 Brain
 
 2.6
 
1.8 		 Central Nervous System
 
 NA
 
NA 		 Thoracic-Abdominal Ganglion
 
 1.5
 
NA 		 Crop
 
 3.5
 
425 		 Midgut
 
 490.7
 
3.3 		 Hindgut
 
 84.3
 
2.3 		 Malpighian Tubules
 
 5.9
 
2 		 Fat Body
 
 5.1
 
4.3 		 Salivary Gland
 
 7
 
NA 		 Heart
 
 2.625
 
1.225 		 Trachea
 
 NA
 
NA 		 VirginFemale Spermatheca
 
 4.3
 
NA 		 InseminatedFemale Spermatheca
 
 4.5
 
NA 		 Ovary
 
 1.2
 
NA 		 Testis
 
 1.8
 
NA 		 Male Accessory Gland
 
 2.6
 
2.125 		 Carcass
 
 7.8

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
Phenotype manifest in
Allele
hide Classical Alleles ( 1 )
For All Classical Alleles Show

Allele of CG4053ClassMutagenStocksKnown lesion
CG4053MB01609
1 --
hide Alleles Carried on Transgenic Constructs ( 2 )
For All Alleles Carried on Transgenic Constructs Show

Allele of CG4053ClassMutagenStocksKnown lesion
CG4053GD57142 Yes
CG4053KK1042661 Yes
hide Aneuploid Aberrations
Disrupted in
(Ryder, 2004.4.26)
hide Transgenic Constructs & Insertions
Transgenic Constructs
Type of construct
Name
Expression data
UAS construct
P{GD5714}
NA
P{KK104266}
NA
Insertions
Type of insertions
Name
Expression data
insertion of enhancer trap binary system
Mi{ET1}CG4053MB01609
No
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
serine-type endopeptidase activity
inferred from sequence or structural similarity with EMBL:AE000663
(FlyBase, 1992-)
non-traceable author statement
(Ross et al., 2003)
Biological Process
CV term
Evidence
References
proteolysis
inferred from electronic annotation with InterPro:IPR001254, InterPro:IPR001314, InterPro:IPR018114
(FlyBase Curators et al., 2004-)
non-traceable author statement
(Ross et al., 2003)
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
CG4053 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
OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs.
•
hide Stocks & Reagents
hide Stocks Listed in FlyBase ( 4 )
Bloomington
23747
y1 w67c23; Mi{ET1}CG4053MB01609
VDRC
v100419
P{KK104266}VIE-260B
v51551
w1118; P{GD5714}v51551
v52006
w1118; P{GD5714}v52006/CyO
hide Genomic Clones ( 2 )

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
hide cDNA Clones ( 1 )

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
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
•
Peptidase S1/S6, chymotrypsin/Hap (IPR001254)
Peptidase S1A, chymotrypsin-type (IPR001314)
Peptidase cysteine/serine, trypsin-like (IPR009003)
Peptidase S1/S6, chymotrypsin/Hap, active site (IPR018114)
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
•
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
CG4053
(Keleman et al., 2009.8.5)
SP185
(Ross et al., 2003)
Name Synonym
Secondary FlyBase IDs
hide References ( 11 )
Research paper
Ross et al., 2003, Gene 304(1-2): 117--131
Serine proteases and their homologs in the Drosophila melanogaster genome: an initial analysis of sequence conservation and phylogenetic relationships. [FBrf0155784]
Supplementary material
The modENCODE Consortium, 2010, Science 330(6012):
DataS14: Gene co-expression clusters. [FBrf0213979]
Giot et al., 2003, Science 302(5651):
Tables S1 to S7. [FBrf0166452]
Personal communication to FlyBase
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]
Bellen, 2007.2.1, Batch706FlyBase_cyto_update.xml
Batch706FlyBase_cyto_update.xml [FBrf0191799]
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]
Ryder, 2004.4.26, Exelixis CG deletion data.
Exelixis CG deletion data. [FBrf0184335]
FlyBase analysis
FlyBase, 1992-, FlyBase curation
FlyBase curation. [FBrf0105495]
Automatic genome annotation
FamiliarityBreedsContempt, 1999.11, [Annotations performed at the Celera Jamboreee.]
[Annotations performed at the Celera Jamboreee.] [FBrf0126705]
Curated genome annotation
Gong, 1999.11, [Annotations performed at the Celera Jamboreee.]
[Annotations performed at the Celera Jamboreee.] [FBrf0126669]