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STX6 syntaxin 6 [ Homo sapiens (human) ]

Gene ID: 10228, updated on 13-Mar-2020

Summary

Official Symbol
STX6provided by HGNC
Official Full Name
syntaxin 6provided by HGNC
Primary source
HGNC:HGNC:11441
See related
Ensembl:ENSG00000135823 MIM:603944
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Ubiquitous expression in brain (RPKM 10.0), esophagus (RPKM 7.6) and 24 other tissues See more
Orthologs

Genomic context

See STX6 in Genome Data Viewer
Location:
1q25.3
Exon count:
8
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (180972712..181023121, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (180942164..180992074, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene KIAA1614 Neighboring gene KIAA1614 antisense RNA 1 Neighboring gene major histocompatibility complex, class I-related pseudogene Neighboring gene major histocompatibility complex, class I-related Neighboring gene immediate early response 5

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Identification of common variants influencing risk of the tauopathy progressive supranuclear palsy.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Nef nef Genome-wide shRNA screening identifies STX6, which is required for HIV-1 Nef-induced downregulation of CD4 in HeLa CD4+ cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
SNAP receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
SNARE binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
syntaxin binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
Golgi ribbon formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
Golgi vesicle transport IEA
Inferred from Electronic Annotation
more info
 
endocytic recycling IMP
Inferred from Mutant Phenotype
more info
PubMed 
endosome organization IEA
Inferred from Electronic Annotation
more info
 
intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of cellular protein localization IEA
Inferred from Electronic Annotation
more info
 
regulation of protein localization IMP
Inferred from Mutant Phenotype
more info
PubMed 
retrograde transport, endosome to Golgi IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
retrograde transport, endosome to Golgi IMP
Inferred from Mutant Phenotype
more info
PubMed 
synaptic vesicle to endosome fusion IEA
Inferred from Electronic Annotation
more info
 
vesicle docking IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
vesicle fusion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
vesicle fusion IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
Golgi apparatus IDA
Inferred from Direct Assay
more info
PubMed 
Golgi membrane TAS
Traceable Author Statement
more info
 
SNARE complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
SNARE complex IDA
Inferred from Direct Assay
more info
PubMed 
clathrin-coated vesicle TAS
Traceable Author Statement
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
early endosome IDA
Inferred from Direct Assay
more info
PubMed 
endomembrane system IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of synaptic vesicle membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
phagocytic vesicle IEA
Inferred from Electronic Annotation
more info
 
plasma membrane TAS
Traceable Author Statement
more info
PubMed 
synaptic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
trans-Golgi network IDA
Inferred from Direct Assay
more info
PubMed 
trans-Golgi network membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
trans-Golgi network membrane TAS
Traceable Author Statement
more info
 

NCBI Reference Sequences (RefSeq)

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_001286210.1NP_001273139.1  syntaxin-6 isoform 2

    See identical proteins and their annotated locations for NP_001273139.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and lacks a portion of the 5' coding region and uses a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform (1).
    Source sequence(s)
    AK299063, AL162431, AL356267
    Consensus CDS
    CCDS65738.1
    UniProtKB/Swiss-Prot
    O43752
    Related
    ENSP00000440188.1, ENST00000542060.5
    Conserved Domains (1) summary
    cd15851
    Location:65130
    SNARE_Syntaxin6; SNARE motif of syntaxin 6
  2. NM_005819.6NP_005810.1  syntaxin-6 isoform 1

    See identical proteins and their annotated locations for NP_005810.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL162431, BC009944, DA311923
    Consensus CDS
    CCDS1341.1
    UniProtKB/Swiss-Prot
    O43752
    Related
    ENSP00000258301.5, ENST00000258301.6
    Conserved Domains (2) summary
    cd15851
    Location:166231
    SNARE_Syntaxin6; SNARE motif of syntaxin 6
    pfam09177
    Location:13103
    Syntaxin-6_N; Syntaxin 6, N-terminal

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    180972712..181023121 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017000007.1XP_016855496.1  syntaxin-6 isoform X1

    UniProtKB/Swiss-Prot
    O43752
    Conserved Domains (1) summary
    cd15851
    Location:65130
    SNARE_Syntaxin6; SNARE motif of syntaxin 6
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