Aliases for STX6 Gene

Aliases for STX6 Gene

  • Syntaxin 6 2 3 5
  • Syntaxin-6 3 4
  • STX6 5

External Ids for STX6 Gene

Previous GeneCards Identifiers for STX6 Gene

  • GC01M178439
  • GC01M176341
  • GC01M177433
  • GC01M178152
  • GC01M178177
  • GC01M177644
  • GC01M179179
  • GC01M179208
  • GC01M180941
  • GC01M152173
  • GC01M180950
  • GC01M181097
  • GC01M181095
  • GC01M181079
  • GC01M181291
  • GC01M181012

Summaries for STX6 Gene

GeneCards Summary for STX6 Gene

STX6 (Syntaxin 6) is a Protein Coding gene. Diseases associated with STX6 include Leukodystrophy, Hypomyelinating, 6 and Cerebral Dysgenesis, Neuropathy, Ichthyosis, And Palmoplantar Keratoderma Syndrome. Among its related pathways are Vesicle-mediated transport and wtCFTR and delta508-CFTR traffic / Generic schema (norm and CF). Gene Ontology (GO) annotations related to this gene include syntaxin binding and SNAP receptor activity. An important paralog of this gene is STX10.

UniProtKB/Swiss-Prot Summary for STX6 Gene

Gene Wiki entry for STX6 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for STX6 Gene

Genomics for STX6 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for STX6 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J181020 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas 250.7 +0.9 893 3.7 TBP ZBTB10 SP1 FEZF1 MNT DEK SMAD5 ETS1 ZNF217 POLR2A STX6 LHX4 LHX4-AS1 ENSG00000272880 CACNA1E KIAA1614 piR-57134-007
GH01J181086 Promoter/Enhancer 2.3 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 3.2 -69.4 -69442 11.6 ZSCAN16 TBP ZBTB10 SP1 MXD4 FEZF1 CEBPA FOXA1 MNT DEK HSALNG0008848 lnc-IER5-3 piR-47362 lnc-STX6-5 LHX4 IER5 ENSG00000272880 MR1 LHX4-AS1 KIAA1614
GH01J181139 Enhancer 1.6 FANTOM5 ENCODE CraniofacialAtlas dbSUPER 3.1 -118.1 -118078 4 ZSCAN16 TBP CEBPA MNT DEK IKZF1 IRF2 ZNF217 CTCF NONO IER5 STX6 MR1 LINC01732 HSALNG0008859 CACNA1E
GH01J181132 Enhancer 1.5 FANTOM5 ENCODE dbSUPER 1.7 -111.8 -111795 4.4 ZSCAN16 ZBTB10 BCL11A POLR2A CTCF ZIC2 KDM6A THAP11 CUX1 ZNF521 LHX4 LHX4-AS1 IER5 KIAA1614 MR1 STX6 LINC01732 HSALNG0008859 CACNA1E
GH01J181159 Enhancer 1.1 FANTOM5 Ensembl ENCODE 1.6 -137.1 -137080 6 BCL11A ELF1 RUNX1 TAL1 CBFB HDAC2 POLR2A MYC MAX JUND IER5 MR1 STX6 HSALNG0008859 LINC01732 CACNA1E
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around STX6 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for STX6

Top Transcription factor binding sites by QIAGEN in the STX6 gene promoter:
  • AML1a
  • Elk-1
  • FOXL1
  • GATA-1
  • ISGF-3
  • POU2F1
  • POU2F1a
  • RFX1
  • Roaz

Genomic Locations for STX6 Gene

Latest Assembly
50,410 bases
Minus strand

Previous Assembly
(GRCh37/hg19 by Entrez Gene)
50,146 bases
Minus strand

(GRCh37/hg19 by Ensembl)
50,187 bases
Minus strand

Genomic View for STX6 Gene

Genes around STX6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
STX6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for STX6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for STX6 Gene

Proteins for STX6 Gene

  • Protein details for STX6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B2R652
    • B4DR17
    • Q5VY08
    • Q6FH83

    Protein attributes for STX6 Gene

    255 amino acids
    Molecular mass:
    29176 Da
    Quaternary structure:
    • Identified in a complex containing STX6, STX12, VAMP4 and VTI1A (PubMed:17159904). Binds EEA1 (By similarity). Interacts with VPS45A (By similarity). Interacts with MARCHF2 and MARCHF3 (By similarity). Interacts with GOPC (PubMed:11384996). Interacts with UHRF1BP1L (via C-terminal coiled-coil domain) (PubMed:20163565). Interacts with BAIAP3; this interaction is increased in the presence of calcium (PubMed:28626000).

    Three dimensional structures from OCA and Proteopedia for STX6 Gene

    Alternative splice isoforms for STX6 Gene


neXtProt entry for STX6 Gene

Post-translational modifications for STX6 Gene

  • Ubiquitination at Lys139 and Lys77
  • Modification sites at PhosphoSitePlus

Other Protein References for STX6 Gene

No data available for DME Specific Peptides for STX6 Gene

Domains & Families for STX6 Gene

Gene Families for STX6 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted membrane proteins
  • Transporters

Protein Domains for STX6 Gene

Suggested Antigen Peptide Sequences for STX6 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ57566, highly similar to Syntaxin-6 (B4DR17_HUMAN)
  • Syntaxin-6 (STX6_HUMAN)

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the syntaxin family.
  • Belongs to the syntaxin family.
genes like me logo Genes that share domains with STX6: view

Function for STX6 Gene

Molecular function for STX6 Gene

UniProtKB/Swiss-Prot Function:
Involved in intracellular vesicle trafficking.

Phenotypes From GWAS Catalog for STX6 Gene

Gene Ontology (GO) - Molecular Function for STX6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000149 SNARE binding IBA 21873635
GO:0005484 SNAP receptor activity IBA 21873635
GO:0005515 protein binding IPI 11384996
GO:0019905 syntaxin binding IPI 16154903
genes like me logo Genes that share ontologies with STX6: view
genes like me logo Genes that share phenotypes with STX6: view

miRNA for STX6 Gene

miRTarBase miRNAs that target STX6

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for STX6

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for STX6 Gene

Localization for STX6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for STX6 Gene

Golgi apparatus membrane. Single-pass type IV membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for STX6 gene
Compartment Confidence
plasma membrane 5
nucleus 5
endosome 5
cytosol 5
golgi apparatus 5
cytoskeleton 3
mitochondrion 2
endoplasmic reticulum 2
lysosome 2
extracellular 1
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (4)
  • Nucleoplasm (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for STX6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane TAS --
GO:0005654 nucleoplasm IDA --
GO:0005769 early endosome IDA 10506127
GO:0005794 Golgi apparatus IEA,IDA 19224922
GO:0005802 trans-Golgi network IDA 16154903
genes like me logo Genes that share ontologies with STX6: view

Pathways & Interactions for STX6 Gene

PathCards logo

SuperPathways for STX6 Gene

SuperPathway Contained pathways
1 wtCFTR and delta508-CFTR traffic / Generic schema (norm and CF)
2 Nicotine Pathway (Dopaminergic Neuron), Pharmacodynamics
3 Vesicle-mediated transport
4 Cytoskeletal Signaling
5 Golgi-to-ER retrograde transport
genes like me logo Genes that share pathways with STX6: view

Pathways by source for STX6 Gene

4 GeneGo (Thomson Reuters) pathways for STX6 Gene
  • Delta508-CFTR traffic / ER-to-Golgi in CF
  • Normal wtCFTR traffic / ER-to-Golgi
  • Transport Clathrin-coated vesicle cycle
  • wtCFTR and delta508-CFTR traffic / Generic schema (norm and CF)
1 Cell Signaling Technology pathway for STX6 Gene

Gene Ontology (GO) - Biological Process for STX6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport IBA 21873635
GO:0006906 vesicle fusion IPI 10506127
GO:0007032 endosome organization IEA --
GO:0015031 protein transport IEA --
GO:0016189 synaptic vesicle to endosome fusion IEA --
genes like me logo Genes that share ontologies with STX6: view

No data available for SIGNOR curated interactions for STX6 Gene

Drugs & Compounds for STX6 Gene

(3) Drugs for STX6 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(2) Additional Compounds for STX6 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with STX6: view

Transcripts for STX6 Gene

mRNA/cDNA for STX6 Gene

11 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for STX6

Alternative Splicing Database (ASD) splice patterns (SP) for STX6 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8a · 8b · 8c · 8d ^ 9 ^ 10 ^ 11
SP1: - -
SP2: -
SP4: - - - -

Relevant External Links for STX6 Gene

GeneLoc Exon Structure for

Expression for STX6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for STX6 Gene

Protein differential expression in normal tissues from HIPED for STX6 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (32.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for STX6 Gene

Protein tissue co-expression partners for STX6 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for STX6

SOURCE GeneReport for Unigene cluster for STX6 Gene:


Evidence on tissue expression from TISSUES for STX6 Gene

  • Nervous system(4.9)
  • Muscle(4.3)
  • Skin(2.3)
  • Kidney(2.1)
genes like me logo Genes that share expression patterns with STX6: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for STX6 Gene

Orthologs for STX6 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for STX6 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia STX6 30 31
  • 99.87 (n)
(Monodelphis domestica)
Mammalia STX6 31
  • 93 (a)
(Canis familiaris)
Mammalia -- 31
  • 93 (a)
STX6 30
  • 92.61 (n)
-- 31
  • 74 (a)
(Bos Taurus)
Mammalia STX6 30 31
  • 92.61 (n)
(Mus musculus)
Mammalia Stx6 30 17 31
  • 91.07 (n)
(Rattus norvegicus)
Mammalia Stx6 30
  • 90.52 (n)
(Ornithorhynchus anatinus)
Mammalia STX6 31
  • 88 (a)
(Gallus gallus)
Aves STX6 30 31
  • 82.14 (n)
(Anolis carolinensis)
Reptilia STX6 31
  • 89 (a)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia stx6 30
  • 73 (n)
Str.15502 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.2793 30
(Danio rerio)
Actinopterygii stx6 30 31
  • 70.31 (n)
Dr.11734 30
Fruit Fly
(Drosophila melanogaster)
Insecta Syx6 30 31
  • 57.65 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006251 30
  • 54.61 (n)
(Caenorhabditis elegans)
Secernentea syx-6 31
  • 36 (a)
Thale Cress
(Arabidopsis thaliana)
eudicotyledons SYP61 30
  • 45.48 (n)
(Oryza sativa)
Liliopsida Os01g0963300 30
  • 48.55 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.7279 31
  • 48 (a)
Bread mold
(Neurospora crassa)
Ascomycetes NCU01199 30
  • 45.8 (n)
Fission Yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes tlg1 30
  • 42.18 (n)
Species where no ortholog for STX6 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for STX6 Gene

Gene Tree for STX6 (if available)
Gene Tree for STX6 (if available)
Evolutionary constrained regions (ECRs) for STX6: view image

Paralogs for STX6 Gene

Paralogs for STX6 Gene

(1) SIMAP similar genes for STX6 Gene using alignment to 2 proteins:

  • B4DR17_HUMAN
genes like me logo Genes that share paralogs with STX6: view

Variants for STX6 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for STX6 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for STX6 Gene

Variant ID Type Subtype PubMed ID
esv2719940 CNV deletion 23290073
esv2719951 CNV deletion 23290073
esv2719962 CNV deletion 23290073
esv3359336 CNV duplication 20981092
esv3890804 CNV gain 25118596
nsv1122427 CNV deletion 24896259

Variation tolerance for STX6 Gene

Residual Variation Intolerance Score: 55.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.72; 15.37% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for STX6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for STX6 Gene

Disorders for STX6 Gene

MalaCards: The human disease database

(3) MalaCards diseases for STX6 Gene - From: COP

- elite association - COSMIC cancer census association via MalaCards
Search STX6 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for STX6

Genetic Association Database
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with STX6: view

No data available for UniProtKB/Swiss-Prot and Genatlas for STX6 Gene

Publications for STX6 Gene

  1. Co-expression of several human syntaxin genes in neutrophils and differentiating HL-60 cells: variant isoforms and detection of syntaxin 1. (PMID: 10080545) Martín-Martín B … Mollinedo F (Journal of leukocyte biology 1999) 2 3 4
  2. BAIAP3, a C2 domain-containing Munc13 protein, controls the fate of dense-core vesicles in neuroendocrine cells. (PMID: 28626000) Zhang X … Martin TFJ (The Journal of cell biology 2017) 3 4
  3. Identification of common variants influencing risk of the tauopathy progressive supranuclear palsy. (PMID: 21685912) Höglinger GU … Schellenberg GD (Nature genetics 2011) 3 41
  4. A novel syntaxin 6-interacting protein, SHIP164, regulates syntaxin 6-dependent sorting from early endosomes. (PMID: 20163565) Otto GP … Tooze SA (Traffic (Copenhagen, Denmark) 2010) 4 23
  5. Syntaxin 6 and CAL mediate the degradation of the cystic fibrosis transmembrane conductance regulator. (PMID: 20130090) Cheng J … Guggino WB (Molecular biology of the cell 2010) 3 23

Products for STX6 Gene

Sources for STX6 Gene