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    Stx5 syntaxin 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 65134, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Stx5provided by RGD
    Official Full Name
    syntaxin 5provided by RGD
    Primary source
    RGD:68426
    See related
    EnsemblRapid:ENSRNOG00000018847 AllianceGenome:RGD:68426
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Stx5a
    Summary
    Predicted to enable SNAP receptor activity and SNARE binding activity. Involved in endoplasmic reticulum to Golgi vesicle-mediated transport and vesicle fusion with Golgi apparatus. Located in Golgi membrane. Part of SNARE complex. Human ortholog(s) of this gene implicated in congenital disorder of glycosylation type II. Orthologous to human STX5 (syntaxin 5). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Lung (RPKM 171.2), Thymus (RPKM 164.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Stx5 in Genome Data Viewer
    Location:
    1q43
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (215066532..215082685)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (205637401..205653563)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (224939497..224955658)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene U2 spliceosomal RNA Neighboring gene WD repeat domain 74 Neighboring gene testis expressed 54 Neighboring gene nuclear RNA export factor 1 Neighboring gene transmembrane protein 223

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. ER stress response in NG108-15 cells involves upregulation of syntaxin 5 expression and reduced amyloid β peptide secretion. Suga K, et al. Exp Cell Res, 2015 Mar 1. PMID 25596448
    2. An isoform of the Golgi t-SNARE, syntaxin 5, with an endoplasmic reticulum retrieval signal. Hui N, et al. Mol Biol Cell, 1997 Sep. PMID 9307973, Free PMC Article
    3. Syntaxin 5 Overexpression and β-Amyloid 1-42 Accumulation in Endoplasmic Reticulum of Hippocampal Cells in Rat Brain Induced by Ozone Exposure. Hernández-Zimbrón LF, et al. Biomed Res Int, 2016. PMID 27366738, Free PMC Article
    4. Three-dimensional structure of the rSly1 N-terminal domain reveals a conformational change induced by binding to syntaxin 5. Araç D, et al. J Mol Biol, 2005 Feb 18. PMID 15670607
    5. Role of p97 and syntaxin 5 in the assembly of transitional endoplasmic reticulum. Roy L, et al. Mol Biol Cell, 2000 Aug. PMID 10930451, Free PMC Article

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. O3 exposure (0.25 ppm) induced a significant increase of Syntaxin 5 and accumulation of betaA42 peptide in the reticulum in cells of the dentate gyrus
      Title: Syntaxin 5 Overexpression and β-Amyloid 1-42 Accumulation in Endoplasmic Reticulum of Hippocampal Cells in Rat Brain Induced by Ozone Exposure.
    2. Syx5 plays important roles in beta-amyloid precursor protein processing and in the endoplasmic reticulum stress response.
      Title: ER stress response in NG108-15 cells involves upregulation of syntaxin 5 expression and reduced amyloid β peptide secretion.
    3. depletion of GM130 by RNA interference slows the rate of ER to Golgi trafficking in vivo; interactions of GM130 with syntaxin 5 and Rab1 are regulated by mitotic phosphorylation
      Title: Coordination of golgin tethering and SNARE assembly: GM130 binds syntaxin 5 in a p115-regulated manner.
    4. elucidated the structure in solution of the isolated N-terminal domain of rat Sly1 and analyzed its complex with an N-terminal peptide of rat syntaxin 5 by NMR spectroscopy
      Title: Three-dimensional structure of the rSly1 N-terminal domain reveals a conformational change induced by binding to syntaxin 5.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC156622

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables SNAP receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables SNAP receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables SNAP receptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables SNARE binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in Golgi disassembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in early endosome to Golgi transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in intracellular protein transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in membrane fusion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of Golgi organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in retrograde transport, endosome to Golgi ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in vesicle docking IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in vesicle fusion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in vesicle fusion with Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in Golgi membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of SNARE complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of SNARE complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endomembrane system IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum-Golgi intermediate compartment membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    syntaxin-5
    Names
    syntaxin 5a

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_031704.2 → NP_113892.2  syntaxin-5

      See identical proteins and their annotated locations for NP_113892.2

      Status: VALIDATED

      Source sequence(s)
      BC127489
      UniProtKB/Swiss-Prot
      A0JPL4, O55200, Q08851
      UniProtKB/TrEMBL
      A0A8L2QDM8, A6HZT3
      Conserved Domains (3) summary
      COG5325
      Location:80 → 324
      COG5325; t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
      cd15844
      Location:266 → 338
      SNARE_syntaxin5; SNARE motif of syntaxin 5
      pfam11416
      Location:52 → 73
      Syntaxin-5_N; Syntaxin-5 N-terminal, Sly1p-binding domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086019.1 Reference GRCr8

      Range
      215066532..215082685
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006230997.4 → XP_006231059.1  syntaxin-5 isoform X1

      See identical proteins and their annotated locations for XP_006231059.1

      UniProtKB/Swiss-Prot
      A0JPL4, O55200, Q08851
      UniProtKB/TrEMBL
      A0A8L2QDM8, A6HZT3
      Related
      ENSRNOP00000025664.6, ENSRNOT00000025664.7
      Conserved Domains (3) summary
      COG5325
      Location:80 → 324
      COG5325; t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
      cd15844
      Location:266 → 338
      SNARE_syntaxin5; SNARE motif of syntaxin 5
      pfam11416
      Location:52 → 73
      Syntaxin-5_N; Syntaxin-5 N-terminal, Sly1p-binding domain

    2. XM_039089892.2 → XP_038945820.1  syntaxin-5 isoform X1

      UniProtKB/Swiss-Prot
      A0JPL4, O55200, Q08851
      UniProtKB/TrEMBL
      A0A8L2QDM8, A6HZT3
      Conserved Domains (3) summary
      COG5325
      Location:80 → 324
      COG5325; t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
      cd15844
      Location:266 → 338
      SNARE_syntaxin5; SNARE motif of syntaxin 5
      pfam11416
      Location:52 → 73
      Syntaxin-5_N; Syntaxin-5 N-terminal, Sly1p-binding domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q08851.2 GenPept UniProtKB/Swiss-Prot:Q08851

    Gene LinkOut

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