FB2020_02, released Apr 14, 2020

Gene: Dmel\car

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General Information
Symbol
Dmel\car
Species
D. melanogaster
Name
carnation
Annotation Symbol
CG12230
Feature Type
protein_coding_gene
FlyBase ID
FBgn0000257
Gene Model Status
Current
Stock Availability
52 publicly available
Gene Snapshot
carnation (car) encodes a subunit of the conserved HOPS complex, which is required for pigment granule formation and membrane fusion events, such as fusions between endosomes or autophagosomes with lysosomes. car loss of function mutant flies exhibit altered eye color. [Date last reviewed: 2018-09-06]
Other Summaries
Also Known As

Vps33, Vps33A, l(1)G0447

Key Links
Genomic Location
Cytogenetic map
18D1-18D1
Sequence location
X:19,566,019..19,569,401 [+]
Recombination map

1-63

RefSeq locus
NC_004354 REGION:19566019..19569401
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the STXBP/unc-18/SEC1 family. (Q9Y1I2)
Protein Signatures (InterPro)
Molecular Function (GO)
[Detailed GO annotations]
Experimental Evidence
protein binding; contributes_to syntaxin binding
Predictions / Assertions
SNARE binding
Summaries
Gene Group (FlyBase)
SM TRAFFICKING GENES -
Members of the Sec1/Munc18 (SM) gene family interact with soluble N-ethylmaleimide-sensitive factor attachment protein receptors (SNAREs) to regulate SNARE complex assembly and vesicle membrane fusion. (Adapted from PMID:20471239).
VPS-C COMPLEXES: HOPS AND CORVET -
The heterohexameric VPS-C complexes, HOPS and CORVET have been extensively characterised in yeast. They interact with SNAREs and Rabs to promote vesicle tethering. The CORVET complex is involved in early endosome fusion, interacting with Rab5-GTP. The HOPS complex interacts with Rab7-GTP on late endosomes (multivesicular bodies) to promote fusion with the lysosomal compartment (and vacuoles) and also autophagosome-lysosome fusion. The VPS-C complexes share common subunits and CORVET to HOPS conversion intermediates (i-CORVET and i-HOPS) have been proposed to accompany early to late endosome maturation. (Adapted from PMID:19575650 and FBrf0223135).
Protein Function (UniProtKB)
Required for the biogenesis of eye pigment granules (PubMed:10549280). Plays a role in vesicle-mediated protein trafficking to lysosomal compartments and in membrane docking/fusion reactions of late endosomes/lysosomes probably as part of the class C core vacuole/endosome tethering (CORVET) complex (PubMed:10549280, PubMed:22160599, PubMed:27253064).
(UniProt, Q9Y1I2)
Phenotypic Description (Red Book; Lindsley and Zimm 1992)
car: carnation
Eye color dark ruby. Body shape and proportions seem rounded. With st, eye color is yellow-brown; with bw, brownish yellow to brown (Mainx, 1938, Z. Indukt. Abstamm. Vererbungsl. 75: 256-76). Malpighian tubes pale yellow in mature larva (Beadle, 1937, Genetics 22: 587-611) but hard to distinguish from wild type before third instar. Eye color autonomous in transplant into wild-type host (Beadle and Ephrussi, 1936, Genetics 21: 230). car dor is pupal lethal and shows reduced recovery in gynandromorphs with male parts car dor (Nash, 1971, DIS 47: 73). car lt also lethal, dies as larva when mother car;lt/+ or car/+;lt and as pupa when mother car/+;lt/+ (Nickla, 1977, Nature 268: 638-39); lethal focus domineering; fate maps to ventral nervous system (Nickla, Lilly, and McCarthy, 1980, Experientia 36: 402-05). Brain histology abnormal [McCarthy and Nickla, 1980, Experientia 36: 1361-63 (fig.)].
Gene Model and Products
Number of Transcripts
3
Number of Unique Polypeptides
2

Please see the GBrowse view of Dmel\car or the JBrowse view of Dmel\car for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Comments on Gene Model

Gene model reviewed during 5.40

gene_with_stop_codon_read_through ; SO:0000697

Gene model reviewed during 5.44

Stop-codon suppression (UGA) postulated; FBrf0216884.

Gene model reviewed during 5.52

Sequence Ontology: Class of Gene
gene_with_stop_codon_read_through
(Jungreis et al., 2011)
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
car-RA
FBtr0074728
NM_078686
3097
617
car-RB
FBtr0074727
NM_167664
3173
617
car-RC
FBtr0331158
NM_001272778
3173
639
Additional Transcript Data and Comments
Reported size (kB)

3.022 (longest cDNA)

(Sevrioukov et al., 1999)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
car-PA
FBpp0074497
68.8
617
6.74
NP_523410
AAF48972
car-PB
FBpp0074496
68.8
617
6.74
NP_728266
AAN09503
car-PC
FBpp0303585
71.2
639
7.13
NP_001259707
AGB95547
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

617 aa isoforms: car-PA, car-PB
Additional Polypeptide Data and Comments
Reported size (kDa)

617 (aa)

(Sevrioukov et al., 1999)
Comments
External Data
Subunit Structure (UniProtKB)

Component of the class C core vacuole/endosome tethering (CORVET) complex composed of at least dor/Vps18, Vps16A, Vps8 and car/Vps33A; unlike in other species, Vps11 is not part of the Drosophila complex (PubMed:27253064). Interacts with dor (PubMed:10549280). Interacts with ema (PubMed:20194640).

(UniProt, Q9Y1I2)
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\car using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Gene Ontology (26 terms)
Molecular Function (3 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
protein binding
inferred from physical interaction with UniProtKB:M9PF72,UniProtKB:Q24314,UniProtKB:Q9VHG1,UniProtKB:Q9VRX2
(assigned by UniProt )
(Lőrincz et al., 2016)
inferred from physical interaction with UniProtKB:A4V4S5,UniProtKB:Q24314,UniProtKB:Q9VHG1,UniProtKB:Q9VRX2
(assigned by UniProt )
(Lőrincz et al., 2016)
inferred from physical interaction with UniProtKB:Q24314
(assigned by UniProt )
(Sevrioukov et al., 1999)
syntaxin binding
inferred from physical interaction with FLYBASE:Syx16; FB:FBgn0031106
(Akbar et al., 2009)
contributes_to syntaxin binding
inferred from physical interaction with FLYBASE:Syx17; FB:FBgn0035540
(Takáts et al., 2014)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
SNARE binding
inferred from sequence or structural similarity
(Littleton, 2000)
Biological Process (18 terms)
Terms Based on Experimental Evidence (13 terms)
CV Term
Evidence
References
autophagosome maturation
inferred from mutant phenotype
(Takáts et al., 2014, Akbar et al., 2009)
cellular response to starvation
inferred from mutant phenotype
(Takáts et al., 2014)
compound eye pigmentation
inferred from mutant phenotype
(Chi et al., 2010)
inferred from genetic interaction with FLYBASE:p; FB:FBgn0086679
(Falcon-Perez et al., 2007)
determination of adult lifespan
inferred from mutant phenotype
(Simonsen et al., 2007)
endocytosis
inferred from mutant phenotype
(Wilkin et al., 2008)
endosomal vesicle fusion
inferred from mutant phenotype
(assigned by UniProt )
(Lőrincz et al., 2016)
endosome organization
inferred from mutant phenotype
(Sriram et al., 2003)
endosome to lysosome transport
inferred from mutant phenotype
(Akbar et al., 2009)
eye pigment granule organization
inferred from mutant phenotype
(Akbar et al., 2009)
inferred from mutant phenotype
(assigned by UniProt )
(Sevrioukov et al., 1999)
Notch receptor processing
inferred from mutant phenotype
(Wilkin et al., 2008)
ommochrome biosynthetic process
inferred from mutant phenotype
(Tearle, 1991)
protein targeting to lysosome
inferred from mutant phenotype
(assigned by UniProt )
(Sevrioukov et al., 1999)
regulation of protein ubiquitination
inferred from mutant phenotype
(Simonsen et al., 2007)
Terms Based on Predictions or Assertions (7 terms)
CV Term
Evidence
References
compound eye pigmentation
traceable author statement
(Toonen and Verhage, 2003)
endosomal transport
inferred from sequence or structural similarity with SGD:S000004388
(Solinger and Spang, 2013)
endosome to lysosome transport
traceable author statement
(Toonen and Verhage, 2003, Luzio et al., 2000)
intracellular transport
traceable author statement
(Narayanan and Ramaswami, 2001)
regulation of SNARE complex assembly
inferred from sequence or structural similarity with SGD:S000004388
(Solinger and Spang, 2013)
vesicle docking involved in exocytosis
inferred from electronic annotation with InterPro:IPR001619
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
vesicle-mediated transport
inferred from sequence or structural similarity
(Littleton, 2000)
Cellular Component (5 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
CORVET complex
inferred from direct assay
(assigned by UniProt )
(Lőrincz et al., 2016)
HOPS complex
inferred from direct assay
(Pulipparacharuvil et al., 2005)
inferred from mutant phenotype
(Takáts et al., 2014)
lysosome
inferred from direct assay
(assigned by UniProt )
(Sevrioukov et al., 1999)
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
CORVET complex
inferred from sequence or structural similarity with SGD:S000004388
(Solinger and Spang, 2013)
cytosol
traceable author statement
(Toonen and Verhage, 2003)
HOPS complex
inferred from sequence or structural similarity with SGD:S000004388
(Solinger and Spang, 2013)
membrane
traceable author statement
(Toonen and Verhage, 2003)
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
(Aradska et al., 2015)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
CORVET complex
inferred from direct assay
(assigned by UniProt )
(Lőrincz et al., 2016)
HOPS complex
inferred from direct assay
(Pulipparacharuvil et al., 2005)
inferred from mutant phenotype
(Takáts et al., 2014)
lysosome
inferred from direct assay
(assigned by UniProt )
(Sevrioukov et al., 1999)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\car in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 1-3
  • Stages(s) 4-6
  • Stages(s) 7-8
  • Stages(s) 9-10
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 10 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 9 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of car
Transgenic constructs containing regulatory region of car
Deletions and Duplications ( 37 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal - all die before end of pupal stage, with Scer\GAL4FRT.Act5C
lethal - all die before end of second instar larval stage | recessive
partially lethal - majority die, with Scer\GAL4pnr-MD237
partially lethal - majority die | recessive
viable
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4tin.CΔ4
Sterility
Allele
fertile
Other Phenotypes
Allele
decreased cell death
eye color defective
eye color defective, with Scer\GAL4FRT.Act5C
short lived | male
some die during pupal stage, with Scer\GAL4FRT.Act5C
some die during pupal stage, with Scer\GAL4pnr-MD237
some die during second instar larval stage | recessive
visible, with Scer\GAL4pnr-MD237
visible | recessive
visible | recessive | somatic clone
wild-type
Phenotype manifest in
Allele
autolysosome | somatic clone | wandering third instar larval stage | nutrition conditional, with Scer\GAL4FRT.Rnor\Cd2.Act5C
embryonic/larval brain
embryonic/larval fat body | somatic clone | wandering third instar larval stage | nutrition conditional, with Scer\GAL4FRT.Rnor\Cd2.Act5C
embryonic/larval garland cell | larval stage, with Scer\GAL4unspecified
endosome
eye
late endosome
late endosome | larval stage, with Scer\GAL4unspecified
male germline cell
Malpighian tubule
mesothoracic tergum, with Scer\GAL4pnr-MD237
ommatidium
ommatidium | somatic clone
pigment cell
pigment cell | somatic clone
rhabdomere
rhabdomere | cell autonomous | somatic clone
spermatogonial cyst
wing | somatic clone
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v7.1)
Homo sapiens (Human) (7)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\VPS33A
15 of 15
Yes
Yes
Hsap\VPS33B
3 of 15
No
No
Hsap\SCFD1
1 of 15
No
No
Hsap\STXBP1
1 of 15
No
No
Hsap\STXBP2
1 of 15
No
No
Hsap\STXBP3
1 of 15
No
No
Hsap\VPS45
1 of 15
No
No
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (7)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Vps33a
14 of 15
Yes
Yes
Mmus\Vps33b
3 of 15
No
No
Mmus\Scfd1
1 of 15
No
No
Mmus\Stxbp1
1 of 15
No
No
Mmus\Stxbp2
1 of 15
No
No
Mmus\Stxbp3
1 of 15
No
No
Mmus\Vps45
1 of 15
No
No
Rattus norvegicus (Norway rat) (7)
Rnor\Vps33a
10 of 13
Yes
Yes
Rnor\Vps33b
3 of 13
No
No
Rnor\Scfd1
1 of 13
No
No
Rnor\Stxbp1
1 of 13
No
No
Rnor\Stxbp2
1 of 13
No
No
Rnor\Stxbp3
1 of 13
No
No
Rnor\Vps45
1 of 13
No
No
Xenopus tropicalis (Western clawed frog) (7)
Xtro\vps33a
4 of 12
Yes
Yes
Xtro\vps33b
2 of 12
No
No
Xtro\scfd1
1 of 12
No
No
Xtro\stxbp1
1 of 12
No
No
Xtro\stxbp2
1 of 12
No
No
Xtro\stxbp3
1 of 12
No
No
Xtro\vps45
1 of 12
No
No
Danio rerio (Zebrafish) (8)
Drer\vps33a
14 of 15
Yes
Yes
Drer\vps33b
3 of 15
No
No
Drer\scfd1
1 of 15
No
No
Drer\stxbp1a
1 of 15
No
No
Drer\stxbp1b
1 of 15
No
No
Drer\stxbp2
1 of 15
No
No
Drer\stxbp3
1 of 15
No
No
Drer\vps45
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (6)
Cele\vps-33.1
9 of 15
Yes
Yes
Cele\vps-33.2
5 of 15
No
No
Cele\sly-1
1 of 15
No
No
Cele\T07A9.10
1 of 15
No
No
Cele\unc-18
1 of 15
No
No
Cele\vps-45
1 of 15
No
No
Arabidopsis thaliana (thale-cress) (1)
Atha\ATVPS33
8 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (4)
Scer\VPS33
9 of 15
Yes
Yes
Scer\SEC1
1 of 15
No
No
Scer\SLY1
1 of 15
No
No
Scer\VPS45
1 of 15
No
No
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\vps33
11 of 12
Yes
Yes
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091906LZ )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00004763
Drosophila simulans
Dsim\GD17447
Drosophila sechellia
Dsec\GM22966
Drosophila erecta
Dere\GG19231
Drosophila yakuba
Dyak\GE15849
Drosophila ananassae
Dana\GF20198
Drosophila pseudoobscura pseudoobscura
Dpse\GA11493
Drosophila persimilis
Dper\GL14537
Drosophila persimilis
Dper\GL14536
Drosophila willistoni
Dwil\GK10350
Drosophila virilis
Dvir\GJ16477
Drosophila mojavensis
Dmoj\GI21456
Drosophila grimshawi
Dgri\GH12312
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091502ZK )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17016918
Glossina morsitans
Tsetse fly
Gmor\GMOY008491
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_05306
Mayetiola destructor
Hessian fly
Mdes\Mdes009998
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL000214
Anopheles darlingi
American malaria mosquito
Adar\ADAC004865
Anopheles gambiae
Malaria mosquito
Agam\AGAP003203
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ013822
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W03AV )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA008046
Danaus plexippus
Monarch butterfly
Dple\DPOGS206911-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL016091
Apis florea
Little honeybee
Aflo\2676033060
Apis mellifera
Western honey bee
Amel\car
Apis mellifera
Western honey bee
Amel\GB41103
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP10896
Bombus terrestris
Buff-tailed bumblebee
Bter\15203042
Linepithema humile
Argentine ant
Lhum\LH25249
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:000c64
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG013521
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_11755
Tribolium castaneum
Red flour beetle
Tcas\TC006102
Pediculus humanus
Human body louse
Phum\PHUM608030
Rhodnius prolixus
Kissing bug
Rpro\RPRC012001
Rhodnius prolixus
Kissing bug
Rpro\RPRC011995
Cimex lectularius
Bed bug
Clec\CLEC000057
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI004826
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_14410
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X037S )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR007845
Ixodes scapularis
Black-legged tick
Isca\ISCW000790
Stegodyphus mimosarum
African social velvet spider
Smim\KFM73712.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur05g03740
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_274981
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_107524
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_109112
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_119900
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_111119
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_301010
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_329944
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_113272
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_116308
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_120082
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_108305
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0AK0 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Vps33B_1
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Vps33B
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Vps33A
Strongylocentrotus purpuratus
Purple sea urchin
Spur\SPU_023451gn
Strongylocentrotus purpuratus
Purple sea urchin
Spur\SPU_011548gn
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000012212
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000021626
Gallus gallus
Domestic chicken
Ggal\VPS33B
Gallus gallus
Domestic chicken
Ggal\VPS33A
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v7.1)
Drosophila melanogaster (Fruit fly) (4)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
Vps33B
6 of 10
Rop
3 of 10
Slh
3 of 10
Vps45
3 of 10
Human Disease Associations
FlyBase Human Disease Model Reports
Disease Model Summary Ribbon
Disease Ontology (DO) Annotations
Models Based on Experimental Evidence ( 1 )
Allele
Disease
Evidence
References
cardsRNA.UAS
model of  cancer
CEA with Ras85DV12.UAS
(Chi et al., 2010)
Potential Models Based on Orthology ( 0 )
Human Ortholog
Disease
Evidence
References
Modifiers Based on Experimental Evidence ( 2 )
Allele
Disease
Interaction
References
car1
ameliorates  neurofibromatosis
modeled by Nf1E2
(Walker et al., 2013)
carΔ146
ameliorates  neurofibromatosis
modeled by Nf1E2
(Walker et al., 2013)
Disease Associations of Human Orthologs (via DIOPT v7.1 and OMIM)
Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
Homo sapiens (Human)
Gene name
Score
OMIM
OMIM Phenotype
DO term
Complementation?
Transgene?
VPS33A; VPS33A core subunit of CORVET and HOPS complexes
15 of 15
610034
    VPS33B; VPS33B late endosome and lysosome associated
    3 of 15
    608552
    Functional Complementation Data
    Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
    Interactions
    Summary of Physical Interactions
    Summary of Genetic Interactions
    esyN Network Diagram
    esyN Network Key:
    Suppression
    Enhancement
    View in Interactions Browser
    Please look at the allele data for full details of the genetic interactions
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    car
    suppressible
    Cys
    (Kinser and Dolph, 2012)
    car|rush
    suppressible
    sta
    (Gailite et al., 2012)
    car
    enhanceable
    w
    (Lloyd et al., 2002)
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    bchs
    enhanceable
    car
    (Simonsen et al., 2007)
    l(2)gd1
    suppressible
    car
    (Schneider et al., 2013)
    Nf1
    suppressible
    car
    (Walker et al., 2013)
    Ras85D
    enhanceable
    car
    (Chi et al., 2010)
    Sk2
    suppressible
    car
    (Yonamine et al., 2011)
    External Data
    Subunit Structure (UniProtKB)
    Component of the class C core vacuole/endosome tethering (CORVET) complex composed of at least dor/Vps18, Vps16A, Vps8 and car/Vps33A; unlike in other species, Vps11 is not part of the Drosophila complex (PubMed:27253064). Interacts with dor (PubMed:10549280). Interacts with ema (PubMed:20194640).
    (UniProt, Q9Y1I2 )
    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.
    MIST (genetic) - An integrated Molecular Interaction Database
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    X
    Recombination map

    1-63

    Cytogenetic map
    18D1-18D1
    Sequence location
    X:19,566,019..19,569,401 [+]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    18D1-18D1
    Limits computationally determined from genome sequence between P{EP}EP1526&P{EP}PfrxEP1150 and P{EP}Tao-1EP1455
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    18D1-18D4
    (determined by in situ hybridisation)
    (Peter et al., 2002, Schäfer et al., 1999.12.2)
    18D1-18D2
    (Lindsley and Grell, 1968)
    Experimentally Determined Recombination Data
    Location

    1-63

    (FlyBase, 2016)

    1-62.1

    (Comeron et al., 2012)

    1-62.5

    Left of (cM)
    (Homyk et al., 1986)
    (Fischbach and Lyly-Hunerberg, 1983)
    Right of (cM)
    (Homyk et al., 1986)
    Notes
    Stocks and Reagents
    Stocks (52)
    Genomic Clones (20)
    cDNA Clones (72)
     

    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 sequences
    BDGP DGC clones
    Other clones
      Drosophila Genomics Resource Center cDNA clones

      For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

      cDNA Clones, End Sequenced (ESTs)
      BDGP DGC clones
      Other clones
      RNAi and Array Information
      Linkouts
      DRSC - Results frm RNAi screens
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      Antibody Information
      Laboratory Generated Antibodies
       

      polyclonal

      (Sevrioukov et al., 1999)
      Commercially Available Antibodies
       
      Other Information
      Relationship to Other Genes
      Source for database identify of
      Source for database merge of

      Source for merge of: car Vps33

      (Sevrioukov et al., 1999)

      Source for merge of: car l(1)G0447

      (Peter et al., 2002)
      Additional comments

      "l(1)G0041" may affect "car".

      (Peter et al., 2002)
      Other Comments

      car is required for endocytic trafficking to lysosomes. car is required for the biogenesis of pigment granules.

      (Akbar et al., 2009)

      dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R+ cell morphology.

      (Kiger et al., 2003)

      dor is part of a protein complex which includes car.

      (Sevrioukov et al., 1999)

      Lesions in car reduce eye and ocelli pigmentation and cause excretion of pigment from the tubules.

      (Tearle, 1991)
      Origin and Etymology
      Discoverer

      Patterson, 20th March 1928.

      Etymology
      Identification
      External Crossreferences and Linkouts ( 49 )
      Sequence Crossreferences
      NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
      GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
      GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
      RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
      UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
      UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
      Other crossreferences
      BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
      Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
      Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
      Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
      Flygut - An atlas of the Drosophila adult midgut
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
      InterPro - A database of protein families, domains and functional sites
      KEGG Genes - Molecular building blocks of life in the genomic space.
      modMine - A data warehouse for the modENCODE project
      Linkouts
      BioGRID - A database of protein and genetic interactions.
      DroID - A comprehensive database of gene and protein interactions.
      DRSC - Results frm RNAi screens
      FLIGHT - Cell culture data for RNAi and other high-throughput technologies
      FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
      FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
      FlyMine - An integrated database for Drosophila genomics
      InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
      MIST (genetic) - An integrated Molecular Interaction Database
      MIST (protein-protein) - An integrated Molecular Interaction Database
      Synonyms and Secondary IDs (16)
      Reported As
      Symbol Synonym
      CG12230
      (Hosono et al., 2015, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Dorer et al., 2006)
      Car
      (Rosa-Ferreira et al., 2018, Takáts et al., 2018, Lee et al., 2014, Takáts et al., 2014, Kim et al., 2010, Williamson et al., 2010)
      Dm-Vps33
      (Sevrioukov et al., 1999)
      VPS33a
      (Dorer et al., 2006)
      Vps33
      (Rosa-Ferreira et al., 2018, Gupta et al., 2014, Kim et al., 2010, Littleton, 2000, Kramer, 1999.3.5)
      Vps33/carnation
      (Toonen and Verhage, 2003)
      Vps33A
      (Takáts et al., 2018, Li and Blissard, 2015, Takáts et al., 2014, Kim et al., 2010)
      Vps33a
      (Csizmadia et al., 2018, Solinger and Spang, 2013, Akbar et al., 2009)
      Vps33p
      (Littleton, 2000)
      car
      (Meltzer et al., 2019, Baranski et al., 2018, Csizmadia et al., 2018, Jin et al., 2018, Salazar and Yamamoto, 2018, Napoletano et al., 2017, Sanfilippo et al., 2017, Shimizu et al., 2017, Transgenic RNAi Project members, 2017-, Lőrincz et al., 2016, Lőrincz et al., 2016, Nemetschke and Knust, 2016, Gillingham et al., 2014, Issman-Zecharya and Schuldiner, 2014, Jalvingh et al., 2014, Shimizu et al., 2014, Takáts et al., 2014, Schneider et al., 2013, Solinger and Spang, 2013, Walker et al., 2013, Yacobi-Sharon et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Kinser and Dolph, 2012, Du et al., 2011, Harris et al., 2011, Jungreis et al., 2011, Yamada et al., 2011, Yonamine et al., 2011, Chi et al., 2010, Popodi, 2010.10.8, Popodi et al., 2010-, Venken et al., 2010, Akbar et al., 2009, Chinchore et al., 2009, Soukup et al., 2009, Anaka et al., 2008, Straub et al., 2008, Wilkin et al., 2008, Akbar et al., 2007, Christensen and Cook, 2007.3.22, Falcon-Perez et al., 2007, Pulipparacharuvil et al., 2005)
      carn
      (Simonsen et al., 2007)
      l(1)G0447
      (Schäfer et al., 1999.12.2)
      vps33a
      (Lőrincz et al., 2019)
      Name Synonyms
      Carnation
      (Rosa-Ferreira et al., 2018, Yacobi-Sharon et al., 2013)
      Vacuolar protein sorting protein 33
      carnation
      (Richardson and Portela, 2018, Salazar and Yamamoto, 2018, Lőrincz et al., 2016, Nemetschke and Knust, 2016, Gupta et al., 2014, Schneider et al., 2013, Solinger and Spang, 2013, Gailite et al., 2012, Kinser and Dolph, 2012, Bartlett et al., 2011, Du et al., 2011, Harris et al., 2011, Miles et al., 2011, Chi et al., 2010, Akbar et al., 2009, Chinchore et al., 2009, Akbar et al., 2008, Anaka et al., 2008, Wilkin et al., 2008, Falcon-Perez et al., 2007, Simonsen et al., 2007, Gissen et al., 2005, Pulipparacharuvil et al., 2005)
      Secondary FlyBase IDs
      • FBgn0027357
      • FBgn0040160
      Datasets (0)
      Study focus (0)
      Experimental Role
      Project
      Project Type
      Title
      References (141)