Gene Gene information from NCBI Gene database.
Entrez ID 6857
Gene name Synaptotagmin 1
Gene symbol SYT1
Synonyms (NCBI Gene)
BAGOSP65SVP65SYT
Chromosome 12
Chromosome location 12q21.2
Summary The synaptotagmins are integral membrane proteins of synaptic vesicles thought to serve as Ca(2+) sensors in the process of vesicular trafficking and exocytosis. Calcium binding to synaptotagmin-1 participates in triggering neurotransmitter release at the
SNPs SNP information provided by dbSNP.
7
SNP ID Visualize variation Clinical significance Consequence
rs144900171 C>G,T Likely-benign, likely-pathogenic, pathogenic Missense variant, synonymous variant, coding sequence variant
rs1135402761 T>C Likely-pathogenic, pathogenic Missense variant, coding sequence variant
rs1555226395 G>A Likely-pathogenic Missense variant, coding sequence variant
rs1565922388 T>A Likely-pathogenic, pathogenic Missense variant, coding sequence variant
rs1565922395 A>G Likely-pathogenic, pathogenic Missense variant, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
236
miRTarBase ID miRNA Experiments Reference
MIRT006304 hsa-miR-34a-5p Luciferase reporter assayWestern blot 22160687
MIRT006304 hsa-miR-34a-5p Luciferase reporter assayWestern blot 22160687
MIRT006304 hsa-miR-34a-5p Luciferase reporter assayWestern blot 22160687
MIRT006304 hsa-miR-34a-5p Luciferase reporter assayWestern blot 22160687
MIRT006304 hsa-miR-34a-5p Luciferase reporter assayWestern blot 22160687
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
111
GO ID Ontology Definition Evidence Reference
GO:0000149 Function SNARE binding IBA
GO:0000149 Function SNARE binding IEA
GO:0000149 Function SNARE binding ISS
GO:0001786 Function Phosphatidylserine binding IEA
GO:0005509 Function Calcium ion binding IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
185605 11509 ENSG00000067715
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P21579
Protein name Synaptotagmin-1 (Synaptotagmin I) (SytI) (p65)
Protein function Calcium sensor that participates in triggering neurotransmitter release at the synapse (By similarity). May have a regulatory role in the membrane interactions during trafficking of synaptic vesicles at the active zone of the synapse (By similar
PDB 2K45 , 2K4A , 2K8M , 2KI6 , 2LHA , 2N1T , 2R83 , 3F00 , 3F01 , 3F04 , 3F05 , 4ISQ , 4V11 , 6G5F , 6G5K , 6QNS , 6TZ3 , 6U41 , 6U4U , 6U4W , 6ZVN , 7TUA , 7U4Q , 8B8I
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00168 C2 157 263 C2 domain Domain
PF00168 C2 288 394 C2 domain Domain
Tissue specificity TISSUE SPECIFICITY: Expressed in melanocytes (PubMed:23999003). {ECO:0000269|PubMed:23999003}.
Sequence
MVSESHHEALAAPPVTTVATVLPSNATEPASPGEGKEDAFSKLKEKFMNELHKIPLPPWA
LIAIAIVAVLLVLTCCFCICKKCLFKKKNKKKGKEKGGKNAINMKDVKDLGKTMKDQALK
DDDAETGLTDGEEKEEPKEEEKLGKLQYSLDYDFQNNQLLVGIIQAAELPALDMGGTSDP
YVKVFLLPDKKKKFETKVHRKTLNPVFNEQFTFKVPYSELGGKTLVMAVYDFDRFSKHDI
IGEFKVPMNTVDFGHVTEEWRDL
QSAEKEEQEKLGDICFSLRYVPTAGKLTVVILEAKNL
KKMDVGGLSDPYVKIHLMQNGKRLKKKKTTIKKNTLNPYYNESFSFEVPFEQIQKVQVVV
TVLDYDKIGKNDAIGKVFVGYNSTGAELRHWSDM
LANPRRPIAQWHTLQVEEEVDAMLAV
KK
Sequence length 422
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Synaptic vesicle cycle   Serotonin Neurotransmitter Release Cycle
Norepinephrine Neurotransmitter Release Cycle
Glutamate Neurotransmitter Release Cycle
Dopamine Neurotransmitter Release Cycle
Acetylcholine Neurotransmitter Release Cycle
Toxicity of botulinum toxin type B (BoNT/B)
Toxicity of botulinum toxin type G (BoNT/G)
Cargo recognition for clathrin-mediated endocytosis
Clathrin-mediated endocytosis
GABA synthesis, release, reuptake and degradation
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
21
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Infantile hypotonia-oculomotor anomalies-hyperkinetic movements-developmental delay syndrome Pathogenic; Likely pathogenic rs1377017458, rs2136007608, rs2136007588, rs2547785983, rs2547708515, rs2547658386, rs1135402761, rs1565922388, rs1565922395, rs1565962725, rs144900171, rs1593076474 RCV001788529
RCV001724785
RCV002246756
RCV002283762
RCV002289190
View all (7 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Neurodevelopmental disorder Likely pathogenic rs2138866856 RCV001375033
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Syndromic intellectual disability Pathogenic rs1565962725 RCV001254686
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
SYT1-associated neurodevelopmental disorder Likely pathogenic; Pathogenic rs1135402761, rs1565922388, rs1565922395, rs1565962725, rs144900171 RCV000721124
RCV000721122
RCV000721123
RCV000721125
RCV000721126
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Likely benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ATTENTION DEFICIT HYPERACTIVITY DISORDER GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTISM SPECTRUM DISORDER GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BLADDER EXSTROPHY GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Acute Erythroblastic Leukemia Erythroblastic Leukemia BEFREE 26378023
★☆☆☆☆
Found in Text Mining only
Acute lymphocytic leukemia Lymphocytic Leukemia BEFREE 12458326
★☆☆☆☆
Found in Text Mining only
Acute monocytic leukemia Monocytic Leukemia BEFREE 21901538
★☆☆☆☆
Found in Text Mining only
Acute pancreatitis Pancreatitis BEFREE 27959400, 30570131, 31671079
★☆☆☆☆
Found in Text Mining only
Acute Promyelocytic Leukemia Promyelocytic Leukemia BEFREE 12214859, 28317833
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Adenocarcinoma BEFREE 17078054, 17493236, 9918209
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of lung (disorder) Lung adenocarcinoma BEFREE 25499851, 25820700, 29207489
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of pancreas Pancreatic adenocarcinoma BEFREE 16849549, 20556833
★☆☆☆☆
Found in Text Mining only
Adenoma Adenoma BEFREE 12722795
★☆☆☆☆
Found in Text Mining only
Adenomatous Polyposis Coli Multiple polyposis syndrome BEFREE 26910375
★☆☆☆☆
Found in Text Mining only