FB2024_03 , released June 25, 2024
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
51 publicly available
Gene Summary
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] (FlyBase Gene Snapshot)
All Summaries
Also Known As

Vps33, Vps33a, l(1)G0447

Key Links
Genomic Location
Cytogenetic map
18D1-18D1
Sequence location
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
Gene Ontology (GO) Annotations (27 terms)
Molecular Function (3 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
enables protein binding
inferred from physical interaction with UniProtKB:Q24314
(Sevrioukov et al., 1999)
inferred from physical interaction with UniProtKB:M9PF72,UniProtKB:Q24314,UniProtKB:Q9VHG1,UniProtKB:Q9VRX2
(Lőrincz et al., 2016)
inferred from physical interaction with UniProtKB:A4V4S5,UniProtKB:Q24314,UniProtKB:Q9VHG1,UniProtKB:Q9VRX2
(Lőrincz et al., 2016)
contributes_to syntaxin binding
inferred from physical interaction with FLYBASE:Syx17; FB:FBgn0035540
(Takáts et al., 2014)
enables syntaxin binding
inferred from physical interaction with FLYBASE:Syx16; FB:FBgn0031106
(Akbar et al., 2009)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
enables SNARE binding
inferred from sequence or structural similarity
(Littleton, 2000)
Biological Process (19 terms)
Terms Based on Experimental Evidence (14 terms)
CV Term
Evidence
References
involved_in autophagosome maturation
inferred from mutant phenotype
(Takáts et al., 2014, Akbar et al., 2009)
involved_in cellular response to starvation
inferred from mutant phenotype
(Takáts et al., 2014)
involved_in 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)
involved_in crinophagy
inferred from mutant phenotype
(Csizmadia et al., 2018)
involved_in determination of adult lifespan
inferred from mutant phenotype
(Simonsen et al., 2007)
involved_in endocytosis
inferred from mutant phenotype
(Wilkin et al., 2008)
involved_in endosomal vesicle fusion
inferred from mutant phenotype
(Lőrincz et al., 2016)
involved_in endosome organization
inferred from mutant phenotype
(Sriram et al., 2003)
involved_in endosome to lysosome transport
inferred from mutant phenotype
(Akbar et al., 2009)
involved_in eye pigment granule organization
inferred from mutant phenotype
(Akbar et al., 2009)
inferred from mutant phenotype
(Sevrioukov et al., 1999)
involved_in Notch receptor processing
inferred from mutant phenotype
(Wilkin et al., 2008)
involved_in ommochrome biosynthetic process
inferred from mutant phenotype
(Harris et al., 2011)
involved_in protein targeting to lysosome
inferred from mutant phenotype
(Sevrioukov et al., 1999)
involved_in regulation of protein ubiquitination
inferred from mutant phenotype
(Simonsen et al., 2007)
Terms Based on Predictions or Assertions (7 terms)
CV Term
Evidence
References
involved_in compound eye pigmentation
traceable author statement
(Toonen and Verhage, 2003)
involved_in endosomal transport
inferred from sequence or structural similarity with SGD:S000004388
(Solinger and Spang, 2013)
involved_in endosome to lysosome transport
traceable author statement
(Toonen and Verhage, 2003, Luzio et al., 2000)
involved_in intracellular protein transport
inferred from biological aspect of ancestor with PANTHER:PTN000187655
(GO Reference Genome Project, 2011-)
involved_in intracellular transport
traceable author statement
(Narayanan and Ramaswami, 2001)
involved_in regulation of SNARE complex assembly
inferred from sequence or structural similarity with SGD:S000004388
(Solinger and Spang, 2013)
involved_in vesicle-mediated transport
inferred from electronic annotation with InterPro:IPR001619
(InterPro Project Members, 2004-)
inferred from sequence or structural similarity
(Littleton, 2000)
inferred from biological aspect of ancestor with PANTHER:PTN000187655
(GO Reference Genome Project, 2011-)
Cellular Component (5 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
part_of CORVET complex
inferred from direct assay
(Lőrincz et al., 2016)
part_of HOPS complex
inferred from mutant phenotype
(Takáts et al., 2014)
inferred from physical interaction with UniProtKB:Q24314, UniProtKB:Q5KU39, UniProtKB:Q9VHG1
(Lőrincz et al., 2019)
inferred from direct assay
(Pulipparacharuvil et al., 2005)
located_in lysosome
inferred from direct assay
(Sevrioukov et al., 1999)
Terms Based on Predictions or Assertions (5 terms)
CV Term
Evidence
References
part_of CORVET complex
inferred from biological aspect of ancestor with PANTHER:PTN000187807
(GO Reference Genome Project, 2011-)
inferred from sequence or structural similarity with SGD:S000004388
(Solinger and Spang, 2013)
located_in cytosol
traceable author statement
(Toonen and Verhage, 2003)
part_of HOPS complex
inferred from sequence or structural similarity with SGD:S000004388
(Solinger and Spang, 2013)
is_active_in lysosome
inferred from biological aspect of ancestor with PANTHER:PTN000913042
(GO Reference Genome Project, 2011-)
located_in membrane
traceable author statement
(Toonen and Verhage, 2003)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the STXBP/unc-18/SEC1 family. (Q9Y1I2)
Protein Signatures (InterPro)
Summaries
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]
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)
Core component of the class C core vacuole/endosome tethering (CORVET) and the homotypic fusion and vacuole protein sorting (HOPS) tethering complexes involved in endo-lysosomal vesicle trafficking and lysosome biogenesis (PubMed:10549280, PubMed:22160599, PubMed:24554766, PubMed:27253064). The CORVET complex facilitates docking and fusion of endosomal vesicles during endosome maturation, acts upstream of HOPS, but is not involved in autophagic flux (PubMed:10549280, PubMed:27253064, PubMed:31194677). The CORVET complex may cooperate with the early endosomal tether Rbsn-5 to mediate endosomal fusion (PubMed:27253064). The HOPS complex facilitates docking and fusion of lysosomes with late endosomes and several other types of vesicles (PubMed:24554766, PubMed:31194677). The HOPS complex is also involved in autophagy and crinophagy (the elimination of unused secretory granules through their fusion with lysosomes) (PubMed:24554766, PubMed:31194677). The HOPS complex probably instigates autophagosome-lysosome fusion by binding autophagosome associated Syx17/syntaxin 17 and promoting assembly of the trans-SNARE complex (PubMed:24554766). Independent of Syx17/syntaxin 17 HOPS is involved in biosynthetic transport to lysosomes and lysosome-related organelles such as eye-pigment granules (PubMed:10549280, PubMed:24554766, PubMed:31194677). Required for endocytic degradation of boss/bride of sevenless and N/Notch in developing ommatidia (PubMed:24554766).
(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 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
Structure
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q9Y1I2)

If you don't see a structure in the viewer, refresh your browser.
Model Confidence:
  • Very high (pLDDT > 90)
  • Confident (90 > pLDDT > 70)
  • Low (70 > pLDDT > 50)
  • Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures
Crossreferences
Comments on Gene Model

Gene model reviewed during 5.40

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
UniProt
RefSeq ID
GenBank
car-PA
FBpp0074497
68.8
617
6.74
Q9Y1I2
NP_523410
AAF48972
car-PB
FBpp0074496
68.8
617
6.74
Q9Y1I2
NP_728266
AAN09503
car-PC
FBpp0303585
71.2
639
7.13
M9PF72
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 Vps8, dor/Vps18, car/Vps33A and Vps16A; unlike in other species, Vps11 is not part of the Drosophila complex (PubMed:10549280, PubMed:27253064). Due to the reduced number of components the Drosophila CORVET complex is often referred to as the miniCORVET complex (PubMed:27253064). Interacts with ema (PubMed:20194640). Component of the homotypic fusion and vacuole protein sorting (HOPS) complex, composed of Vps16A, car/Vps33A, dor/Vps18, Vps39, Vps11 and lt/Vps41 (PubMed:31194677). The tethering complex core made up of Vps16A, car/Vps33A and dor/Vps18 and shared by both HOPS and CORVET, preferentially associates with CORVET specific Vps8 over HOPS specific lt/Vps41 (PubMed:31194677). Interacts with Syx17 (via SNARE domain); the interaction requires Vps16A, may involve additional components of the HOPS complex and may promote assembly of the Syx17-Snap29-Vamp7 trans-SNARE complex (PubMed:24554766).

(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
Expression Data
Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

1.51

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
part_of CORVET complex
inferred from direct assay
(Lőrincz et al., 2016)
part_of HOPS complex
inferred from mutant phenotype
(Takáts et al., 2014)
inferred from physical interaction with UniProtKB:Q24314, UniProtKB:Q5KU39, UniProtKB:Q9VHG1
(Lőrincz et al., 2019)
inferred from direct assay
(Pulipparacharuvil et al., 2005)
located_in lysosome
inferred from direct assay
(Sevrioukov et al., 1999)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\car in JBrowse
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
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
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, Transgenic Constructs, and Aberrations
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
Aberrations (Deficiencies and Duplications) ( 37 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
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
abnormal cell number | embryonic stage, with Scer\GAL4VP16.nanos.UTR
abnormal eye color
abnormal eye color, with Scer\GAL4FRT.Act5C
decreased cell death
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
primordial germ cell | embryonic stage, with Scer\GAL4VP16.nanos.UTR
rhabdomere
rhabdomere | cell autonomous | somatic clone
spermatogonial cyst
wing | somatic clone
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (7)
Hsap\VPS33A
14 of 14
Yes
Yes
Hsap\VPS33B
6 of 14
No
Yes
Hsap\SCFD1
2 of 14
No
No
Hsap\STXBP1
2 of 14
No
No
1  
Hsap\STXBP2
2 of 14
No
No
Hsap\STXBP3
2 of 14
No
No
Hsap\VPS45
1 of 14
No
No
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (7)
Rnor\Vps33a
13 of 14
Yes
Yes
Rnor\Vps33b
6 of 14
No
Yes
Rnor\Scfd1
2 of 14
No
No
Rnor\Stxbp1
2 of 14
No
No
Rnor\Stxbp2
2 of 14
No
No
Rnor\Stxbp3
2 of 14
No
No
Rnor\Vps45
2 of 14
No
No
Mus musculus (laboratory mouse) (7)
Mmus\Vps33a
13 of 14
Yes
Yes
Mmus\Vps33b
6 of 14
No
Yes
Mmus\Scfd1
2 of 14
No
No
Mmus\Stxbp1
2 of 14
No
No
Mmus\Stxbp2
2 of 14
No
No
Mmus\Stxbp3
2 of 14
No
No
Mmus\Vps45
2 of 14
No
No
Xenopus tropicalis (Western clawed frog) (9)
Xtro\vps33a
7 of 13
Yes
Yes
Xtro\acacb
3 of 13
No
No
Xtro\vps33b
3 of 13
No
Yes
Xtro\abo.1
1 of 13
No
Yes
Xtro\rnf138
1 of 13
No
Yes
Xtro\stxbp1
1 of 13
No
No
Xtro\stxbp2
1 of 13
No
No
Xtro\stxbp3
1 of 13
No
No
Xtro\vps45
1 of 13
No
No
Danio rerio (Zebrafish) (8)
Drer\vps33a
13 of 14
Yes
Yes
Drer\vps33b
6 of 14
No
Yes
Drer\scfd1
2 of 14
No
No
Drer\stxbp1a
2 of 14
No
No
Drer\stxbp1b
2 of 14
No
No
Drer\stxbp2
2 of 14
No
No
Drer\stxbp3
2 of 14
No
No
Drer\vps45
2 of 14
No
No
Caenorhabditis elegans (Nematode, roundworm) (6)
Cele\vps-33.1
10 of 14
Yes
Yes
Cele\vps-33.2
8 of 14
No
Yes
Cele\T07A9.10
2 of 14
No
No
Cele\sly-1
1 of 14
No
No
Cele\unc-18
1 of 14
No
No
Cele\vps-45
1 of 14
No
No
Anopheles gambiae (African malaria mosquito) (6)
Agam\AgaP_AGAP003203
12 of 12
Yes
Yes
Agam\AgaP_AGAP001463
4 of 12
No
No
Agam\AgaP_AGAP003023
2 of 12
No
No
Agam\AgaP_AGAP003980
2 of 12
No
No
Agam\AgaP_AGAP011358
2 of 12
No
No
Agam\AgaP_AGAP011359
1 of 12
No
Yes
Arabidopsis thaliana (thale-cress) (9)
Atha\ATVPS33
13 of 13
Yes
Yes
Atha\ATSLY1
2 of 13
No
No
Atha\KEU
2 of 13
No
No
Atha\SEC1A
2 of 13
No
No
Atha\SEC1B
2 of 13
No
No
Atha\VPS45
2 of 13
No
No
Atha\AT2G42700
1 of 13
No
Yes
Atha\AT4G31740
1 of 13
No
No
Atha\AT4G36100
1 of 13
No
Yes
Saccharomyces cerevisiae (Brewer's yeast) (4)
Scer\VPS33
10 of 13
Yes
Yes
Scer\SEC1
2 of 13
No
No
Scer\SLY1
2 of 13
No
No
Scer\VPS45
2 of 13
No
No
Schizosaccharomyces pombe (Fission yeast) (4)
Spom\vps33
12 of 12
Yes
Yes
Spom\sec1
2 of 12
No
No
Spom\sly1
2 of 12
No
No
Spom\vps45
2 of 12
No
No
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:car. Refer to their site for version information.
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v9.1)
Gene Symbol
Score
Source
Compara
Domainoid
eggNOG
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Drosophila melanogaster (Fruit fly) (4)
Vps33B
5 of 13
Rop
4 of 13
Vps45
4 of 13
Slh
3 of 13
Human Disease Associations
FlyBase Human Disease Model Reports
Disease Ontology (DO) Annotations
Models Based on Experimental Evidence ( 1 )
Allele
Disease
Evidence
References
carRNAi.UAS
model of  cancer
CEA with Ras85DV12.UAS
(Chi et al., 2010)
Potential Models Based on Orthology ( 1 )
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 v9.1 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
14 of 14
610034
    VPS33B; VPS33B late endosome and lysosome associated
    6 of 14
    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
    Show/hide secondary interactors 
    (data from AllianceMine provided by esyN)
    esyN Network Key:
    Suppression
    Enhancement
    Other Interaction Browsers
    View in FlyBase Interactions Browser   View in MIST tool (external link)
    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 Vps8, dor/Vps18, car/Vps33A and Vps16A; unlike in other species, Vps11 is not part of the Drosophila complex (PubMed:10549280, PubMed:27253064). Due to the reduced number of components the Drosophila CORVET complex is often referred to as the miniCORVET complex (PubMed:27253064). Interacts with ema (PubMed:20194640). Component of the homotypic fusion and vacuole protein sorting (HOPS) complex, composed of Vps16A, car/Vps33A, dor/Vps18, Vps39, Vps11 and lt/Vps41 (PubMed:31194677). The tethering complex core made up of Vps16A, car/Vps33A and dor/Vps18 and shared by both HOPS and CORVET, preferentially associates with CORVET specific Vps8 over HOPS specific lt/Vps41 (PubMed:31194677). Interacts with Syx17 (via SNARE domain); the interaction requires Vps16A, may involve additional components of the HOPS complex and may promote assembly of the Syx17-Snap29-Vamp7 trans-SNARE complex (PubMed:24554766).
    (UniProt, Q9Y1I2 )
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DroID - A comprehensive database of gene and protein interactions.
    MIST (genetic) - An integrated Molecular Interaction Database
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    X
    Recombination map
    1-63
    Cytogenetic map
    18D1-18D1
    Sequence location
    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 (51)
    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 JBrowse for alignment of the cDNAs and ESTs to the gene model.

    cDNA clones, fully sequenced
    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
      Antibody Information
      Laboratory Generated Antibodies
       

      polyclonal

      (Sevrioukov et al., 1999)
      Commercially Available Antibodies
       
      Cell Line Information
      Publicly Available Cell Lines
       
        Other Stable Cell Lines
         
          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)
          Relationship to Other Genes
          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)
          Nomenclature History
          Source for database identify of
          Nomenclature comments
          Etymology
          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
          (Ma et al., 2018, 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
          (Denton et al., 2020, 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 and Juhász, 2020, Csizmadia et al., 2018, Solinger and Spang, 2013, Akbar et al., 2009)
          Vps33p
          (Littleton, 2000)
          car
          (Cox et al., 2021, Csizmadia and Juhász, 2020, 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
          Study result (0)
          Result
          Result Type
          Title
          External Crossreferences and Linkouts ( 51 )
          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/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.
          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
          AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.
          BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
          DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
          EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
          FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
          FlyMine - An integrated database for Drosophila genomics
          InterPro - A database of protein families, domains and functional sites
          KEGG Genes - Molecular building blocks of life in the genomic space.
          MARRVEL_MODEL - MARRVEL (model organism gene)
          Linkouts
          BioGRID - A database of protein and genetic interactions.
          Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
          DroID - A comprehensive database of gene and protein interactions.
          DRSC - Results frm RNAi screens
          Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
          FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
          FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
          Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
          Flygut - An atlas of the Drosophila adult midgut
          iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
          KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
          MIST (genetic) - An integrated Molecular Interaction Database
          MIST (protein-protein) - An integrated Molecular Interaction Database
          References (151)