A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\Syx5

General Information
SymbolDmel\Syx5SpeciesD. melanogaster
NameSyntaxin 5Annotation symbolCG4214
Feature typeprotein_coding_geneFlyBase IDFBgn0011708
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)2LRecombination map
Cytogenetic map35F1-35F1Sequence location2L:16,307,359..16,309,273 [+]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
The gene Syntaxin 5 is referred to in FlyBase by the symbol Syx5 (CG4214, FBgn0011708). It has the cytological map location 35F1. Its sequence location is 2L:16307359..16309273. Its molecular function is described as: protein homodimerization activity; SNAP receptor activity. It is involved in the biological processes: neurotransmitter secretion; vesicle-mediated transport; synaptic vesicle docking during exocytosis; cytokinesis; phagocytosis, engulfment; intracellular protein transport. 11 alleles are reported. The phenotypes of these alleles are annotated with: spermatozoon; testis; Nebenkern; Golgi stack; endoplasmic reticulum. It has 2 annotated transcripts and 2 annotated polypeptides.

External Summaries

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
35F-35F
Determined by comparing Celera genomic sequence with sequence from BDGP BAC and P1 clones.  
(Lloyd et al., 2000)
35F6-35F12
 
(Dawson et al., 1995)
35D3-36A7
(determined by in situ hybridisation)  
(BDGP Project Members, 1994-1999)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology)
References
In direction of increasing cytology: CG5861- Syx5+ cni- fzy+ cact-
(Dawson et al., 1995)
In direction of increasing cytology: CG5861- Syx5+ cni-
(Roth et al., 1995, Ashburner et al., 1999)
Gene Order (overall orientation not stated)
References
hide Gene Model & Products
Please see the GBrowse view of Dmel\Syx5 for information on other features
detailed view FBtr0080830 FBtr0080850 FBtr0080831 FBtr0080832 FBtr0080849 FBtr0080848 FBtr0080833 FBpp0080388 FBpp0080407 FBpp0080390 FBpp0080389 FBpp0080405 FBpp0080406 FBpp0080391 FBti0057577 FBti0011029 FBti0047805 FBti0038780 FBti0020883 FBti0007756
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
Syx5-RA
FBtr0080832
 NM_134305
  1836
  467
Syx5-RB
FBtr0080831
 NM_078858
  1754
  467
Additional Transcript Data & Comments
Reported size (kB)
1.0 (northern blot)
(Roth et al., 1995)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
Syx5-PA  
FBpp0080390  
51.9  
467  
6.53  
  NP_599132
  AAF53520
Syx5-PB  
FBpp0080389  
51.9  
467  
6.53  
  NP_523582
  AAN10935
Additional Polypeptide Data & Comments
Reported size (kD)
310 (aa)
(Banfield et al., 1994)
Comments
External Data
Linkouts
PANTHER - Protein classification by function, families, and pathways
•
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Target SNARE coiled-coil region (IPR000727)
Syntaxin, N-terminal (IPR006011)
Syntaxin/epimorphin, conserved site (IPR006012)
t-SNARE (IPR010989)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA202437
 
AA390846
 
AA803006
 
AA949231
 
AA952027
 
AE003650
AAF53520
 
AE003650
AAN10935
 
AI256882
 
AI257090
 
AI258682
 
AI294931
 
AI296625
 
AI402800
 
AI532336
 
AI541895
 
AW944530
 
AY069832
AAL39977
 
BE976199
 
BF496084
 
BI162155
 
BI162156
 
BI172636
 
BI228883
 
BI234534
 
BI236693
 
BI361338
 
BI371876
 
BI482458
 
BI483043
 
BI569423
 
BI569424
 
BI605087
 
BI612208
 
BI623626
 
BP556970
 
BP556971
 
CK661499
 
CL525967
 
CO191001
 
CO277185
 
CO337675
 
CZ480421
 
EC062392
 
EC064608
 
EC069564
 
EC205903
 
EC243624
 
EC259020
 
EC261578
 
RE01550
 
RH01491
 
X78219
CAA55064
 
 
UniProtKB/Swiss-Prot
    UniProtKB/TrEMBL
    Maps to
    (BDGP Project Members, 1994-1999, FlyBase, 1992-, Ashburner et al., 1999.10.12)
    Does NOT map to
    Identified with
    (Ashburner et al., 1999.10.12)
    (Ashburner et al., 1999, Ashburner et al., 1999.10.12)
    (BDGP Project Members, 2000-)
    hide Mapped Features & Mutations
    Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here
    Type
    Symbol & Location
    Additional Notes
    References
    point mutation
    Syx5[AR113]
    2L:16,308,655..16,308,655
    comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change.
    evidence=experimental
    na_change=C16308655T
    pr_change=Q310|Syx5-PB,Q310|Syx5-PA
    reported_pr_change=Q153@
    (Xu et al., 2002)
    hide External Data
    Linkouts
    DEDB - Drosophila exon database: splicing graphs
    •
    Crossreferences
    hide Expression Data
    FlyBase-Curated Data
    Transcript and
    Protein data     		Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
    hide Summary of Transcript Expression
    Stage
    Tissue/Position
    Reference
     adult stage
     
    (Roth et al., 1995)
     embryonic stage
     
    (Roth et al., 1995)
    Marker for
      Subcellular Localization
      CV Term
      hide Summary of Polypeptide Expression
      Stage
      Tissue/Position
      Reference
      Marker for
        Subcellular Localization
        CV Term
        cis-face Golgi apparatus
        (Banfield et al., 1994)
        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
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Lethality
        Allele
        lethal | recessive
        lethal, with Scer\GAL4elav.PLu
        lethal, with Scer\GAL4Mef2.PR
        semi-lethal (with Syx5AR113), with Scer\GAL4[-]:
        semi-lethal (with Syx5EP2313), with Scer\GAL4[-]:
        Other Phenotypes
        Allele
        wild-type, with Scer\GAL4da.G32
        cytokinesis defective (with Syx5AR113), with Scer\GAL4[-]:
        cytokinesis defective (with Syx5EP2313), with Scer\GAL4[-]:
        Sterility
        Allele
        male sterile (with Syx5AR113), with Scer\GAL4[-]:
        male sterile (with Syx5EP2313), with Scer\GAL4[-]:
        Phenotype manifest in
        Allele
        spermatozoon (with Syx5EP2313), with Scer\GAL4[-]:
        testis (with Syx5EP2313), with Scer\GAL4[-]:
        Nebenkern (with Syx5EP2313), with Scer\GAL4[-]:
        spermatozoon (with Syx5AR113), with Scer\GAL4[-]:
        testis (with Syx5AR113), with Scer\GAL4[-]:
        Nebenkern (with Syx5AR113), with Scer\GAL4[-]:
        Golgi stack
        endoplasmic reticulum
        hide Classical Alleles ( 8 )
        For All Classical Alleles Show

        Allele of Syx5ClassMutagenStocksKnown lesion
        Syx5AA730 --
        Syx5AE480 --
        Syx5AE730 --
        Syx5AR1132 Yes
        Syx5EP23132 Yes
        Syx5EY079011 --
        Syx5e026431 --
        Syx5unspecified
          		0 --
          hide Alleles Carried on Transgenic Constructs ( 3 )
          For All Alleles Carried on Transgenic Constructs Show

          Allele of Syx5ClassMutagenStocksKnown lesion
          Syx5GD17432 Yes
          Syx5dsRNA.cKa0 Yes
          Syx5t14.20 Yes
          hide Aneuploid Aberrations
          Useful deficiency
           
           
          Useful duplication
           
          Disrupted in
          (Ryder, 2004.4.26)
          (Ashburner et al., 1999, Dawson et al., 1995, Roote, 1996.1.11, Roote, 1996.8)
          (Eberl et al., 1998, Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Eberl et al., 1998, Ashburner et al., 1990, Dawson et al., 1995)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990, Dawson et al., 1995)
          (Ashburner et al., 1990)
          (Roote, 1999.7.7)
          (Roote, 1999.7.7)
          (Roote, 2000.6.13)
          (Ashburner et al., 1990)
          Not disrupted in
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1999, Roth et al., 1995)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Eberl et al., 1998, Ashburner et al., 1990, Dawson et al., 1995)
          (Eberl et al., 1998, Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Dawson et al., 1995)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Eberl et al., 1998)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Eberl et al., 1998, Ashburner et al., 1990, Dawson et al., 1995)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          Duplicated in
          (Ashburner et al., 1990)
          Not duplicated in
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          (Ashburner et al., 1990)
          hide Transgenic Constructs & Insertions
          Transgenic Constructs
          Type of construct
          Name
          Expression data
          UAS construct
          P{GD1743}
          NA
          Insertions
          Type of insertions
          Name
          Expression data
          miscellaneous insertions
          PBac{RB}Syx5e02643
          NA
          insertion of mobile activating element
          P{EPgy2}Syx5EY07901
          NA
          P{EP}Syx5EP2313
          NA
          hide Related Comments
          Please look at the allele reports for the complete phenotype data
          S2 cells treated with dsRNA generated against this gene show reduced phagocytosis of Candida albicans compared to untreated cells.
          (Stroschein-Stevenson et al., 2006)
          Studies of Syx5 expressed in COS cells indicates the location of Syx5 is only partially determined by its transmembrane domain and an additional localisation mechanism(s) must exist.
          (Banfield et al., 1994)
          Identified as a transcript in the cni region.
          (Roth et al., 1995)
          dsRNA directed against this gene causes defects in cytokinesis when tested in an RNAi screen in S2 cells.
          (Echard et al., 2004)
          dsRNA made from templates generated with primers directed against Syx5 that is transfected into S2 treated with Listeria monocytogenes reveals Syx5 to be involved in Listeria monocytogenes entry.
          (Cheng et al., 2005)
          hide Gene Ontology: Function, Process & Cellular Component ( 13 )
          hide Molecular Function
          CV term
          Evidence
          References
          SNAP receptor activity
          inferred from sequence or structural similarity
          (Littleton, 2000)
          inferred from sequence or structural similarity with NCBI_gi:4507293
          (McLennan, 2001.5.22)
          protein homodimerization activity
          inferred from physical interaction
          (Banfield et al., 1994)
          hide Biological Process
          CV term
          Evidence
          References
          cytokinesis
          inferred from mutant phenotype
          (Xu et al., 2002)
          inferred from mutant phenotype
          (Echard et al., 2004)
          intracellular protein transport
          inferred from electronic annotation with InterPro:IPR006012
          (FlyBase Curators et al., 2004-)
          neurotransmitter secretion
          non-traceable author statement
          (Lloyd et al., 2000)
          inferred from sequence or structural similarity with NCBI_gi:4507293
          (McLennan, 2001.5.22)
          phagocytosis, engulfment
          inferred from mutant phenotype
          (Stroschein-Stevenson et al., 2006)
          synaptic vesicle docking during exocytosis
          inferred from sequence or structural similarity
          (Littleton, 2000)
          vesicle-mediated transport
          non-traceable author statement
          (Lloyd et al., 2000)
          inferred from sequence or structural similarity with NCBI_gi:4507293
          (McLennan, 2001.5.22)
          hide Cellular Component
          CV term
          Evidence
          References
          Golgi apparatus
          inferred from direct assay
          (Xu et al., 2002)
          Golgi membrane
          inferred from sequence or structural similarity with UniProtKB:Q08851
          (FBrf0198875)
          cis-Golgi network
          inferred from direct assay
          (Banfield et al., 1994)
          endoplasmic reticulum
          inferred from sequence or structural similarity with UniProtKB:Q08851
          (FBrf0198875)
          plasma membrane
          inferred from sequence or structural similarity
          (Littleton, 2000)
          inferred from sequence or structural similarity with NCBI_gi:4507293
          (McLennan, 2001.5.22)
          hide Sequence Ontology: Class of Gene
          protein_coding_gene
           
          nuclear_gene
           
          hide Interactions & Pathways
          hide Summary of Genetic Interactions
          Interacts with
          Please look at the allele data for full details of the genetic interactions
          Syx5 allele
          Gene
          References
          Syx5unspecified
          Nsf2
          (Xu et al., 2002)
          hide External Data
          Linkouts
          BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
          •
          hide Orthologs
          Genome-wide drosophilid orthologs
          Curated drosophilid orthologs
           
          Linkouts
          InParanoid orthologs - Eukaryotic orthologs
          •