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SYT9 synaptotagmin 9 [ Homo sapiens (human) ]

Gene ID: 143425, updated on 22-Sep-2022

Summary

Official Symbol
SYT9provided by HGNC
Official Full Name
synaptotagmin 9provided by HGNC
Primary source
HGNC:HGNC:19265
See related
Ensembl:ENSG00000170743 MIM:613528; AllianceGenome:HGNC:19265
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
Summary
Predicted to enable several functions, including calcium ion binding activity; phospholipid binding activity; and syntaxin binding activity. Predicted to be involved in calcium-ion regulated exocytosis; cellular response to calcium ion; and regulation of secretion by cell. Predicted to be located in clathrin-coated endocytic vesicle membrane. Predicted to be active in hippocampal mossy fiber to CA3 synapse; plasma membrane; and secretory vesicle. Predicted to be integral component of synaptic vesicle membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in brain (RPKM 1.0), adrenal (RPKM 0.5) and 7 other tissues See more
Orthologs
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Genomic context

See SYT9 in Genome Data Viewer
Location:
11p15.4
Exon count:
12
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (7238778..7469043)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (7310613..7527410)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (7273135..7490274)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene NLR family pyrin domain containing 14 Neighboring gene RBMX like 2 Neighboring gene microRNA 302e Neighboring gene Sharpr-MPRA regulatory region 13298 Neighboring gene SYT9 antisense RNA 1 Neighboring gene leucine-rich repeat extensin-like protein 5 Neighboring gene olfactomedin like 1 Neighboring gene PPFIA binding protein 2 Neighboring gene uncharacterized LOC105376535

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

Phenotypes

EBI GWAS Catalog

Description
Genome wide association study (GWAS) of Chagas cardiomyopathy in Trypanosoma cruzi seropositive subjects.
EBI GWAS Catalog
Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations.
EBI GWAS Catalog
Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers.
EBI GWAS Catalog

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ45896

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables SNARE binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables calcium-dependent phospholipid binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables clathrin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
 
enables phosphatidylinositol-4,5-bisphosphate binding IEA
Inferred from Electronic Annotation
more info
 
enables phosphatidylserine binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables syntaxin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
involved_in calcium-dependent activation of synaptic vesicle fusion IEA
Inferred from Electronic Annotation
more info
 
involved_in calcium-ion regulated exocytosis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cellular response to calcium ion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of calcium ion-dependent exocytosis IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of calcium ion-dependent exocytosis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of dopamine secretion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of insulin secretion IEA
Inferred from Electronic Annotation
more info
 
involved_in vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in clathrin-coated endocytic vesicle membrane TAS
Traceable Author Statement
more info
 
is_active_in dense core granule IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in exocytic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in hippocampal mossy fiber to CA3 synapse IEA
Inferred from Electronic Annotation
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in secretory granule membrane IEA
Inferred from Electronic Annotation
more info
 
located_in synaptic vesicle membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
synaptotagmin-9
Names
synaptotagmin IX
sytIX

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_175733.4NP_783860.1  synaptotagmin-9

    See identical proteins and their annotated locations for NP_783860.1

    Status: VALIDATED

    Source sequence(s)
    AC027804, AC060799, AC107884
    Consensus CDS
    CCDS7778.1
    UniProtKB/Swiss-Prot
    Q86SS6
    Related
    ENSP00000324419.6, ENST00000318881.11
    Conserved Domains (2) summary
    cd08403
    Location:354487
    C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
    cl14603
    Location:221345
    C2; C2 domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    7238778..7469043
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011519902.3XP_011518204.1  synaptotagmin-9 isoform X3

    Conserved Domains (2) summary
    cd08403
    Location:322455
    C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
    cl14603
    Location:189313
    C2; C2 domain
  2. XM_047426379.1XP_047282335.1  synaptotagmin-9 isoform X6

  3. XM_011519901.3XP_011518203.1  synaptotagmin-9 isoform X2

    Conserved Domains (2) summary
    cd08403
    Location:354487
    C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
    cl14603
    Location:221345
    C2; C2 domain
  4. XM_011519900.3XP_011518202.1  synaptotagmin-9 isoform X1

    Conserved Domains (2) summary
    cd08403
    Location:354487
    C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
    cl14603
    Location:221345
    C2; C2 domain
  5. XM_011519904.3XP_011518206.1  synaptotagmin-9 isoform X5

    Conserved Domains (2) summary
    cd08403
    Location:354487
    C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
    cl14603
    Location:221345
    C2; C2 domain
  6. XM_047426378.1XP_047282334.1  synaptotagmin-9 isoform X4

  7. XM_047426380.1XP_047282336.1  synaptotagmin-9 isoform X7

  8. XM_011519907.3XP_011518209.1  synaptotagmin-9 isoform X9

    Conserved Domains (1) summary
    cl14603
    Location:221345
    C2; C2 domain
  9. XM_011519906.3XP_011518208.1  synaptotagmin-9 isoform X8

    Related
    ENSP00000432141.2, ENST00000524820.6
    Conserved Domains (1) summary
    cl14603
    Location:221345
    C2; C2 domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    7310613..7527410
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)