SYT13 synaptotagmin 13 [Homo sapiens (human)] - Gene

Summary

Official Symbol: SYT13provided by HGNC
Official Full Name: synaptotagmin 13provided by HGNC
Primary source: HGNC:HGNC:14962
See related: Ensembl:ENSG00000019505 MIM:607716; AllianceGenome:HGNC:14962
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary: This gene encodes a member of the large synaptotagmin protein family. Family members have an extracellular N-terminal transmembrane domain and a cytoplasmic C terminus with two tandem C2 domains (C2A and C2B). Synaptotogmin family members can form homo- and heteromeric complexes with each other. They also have different biochemical properties and developmental profiles, and patterns of tissue distribution. Synaptotagmins function as membrane traffickers in multicellular organisms. Two alternatively spliced transcript variants that encode different protein isoforms have been described for this gene. [provided by RefSeq, Oct 2011]
Expression: Biased expression in brain (RPKM 27.1), gall bladder (RPKM 14.8) and 7 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 11p11.2

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	11	NC_000011.10 (45240302..45286341, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	11	NC_060935.1 (45397823..45443869, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	11	NC_000011.9 (45261853..45307892, complement)

Chromosome 11 - NC_000011.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Tissue-specific circular RNA induction during human fetal development
Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
BioProject: PRJNA270632
Publication: PMID 26076956
Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Synaptotagmin 13 Could Drive the Progression of Esophageal Squamous Cell Carcinoma Through Upregulating ACRV1.
Title: Synaptotagmin 13 Could Drive the Progression of Esophageal Squamous Cell Carcinoma Through Upregulating ACRV1.
Heterozygous knockout of Synaptotagmin13 phenocopies ALS features and TP53 activation in human motor neurons.
Title: Heterozygous knockout of Synaptotagmin13 phenocopies ALS features and TP53 activation in human motor neurons.
Role of synaptotagmin 13 (SYT13) in promoting breast cancer and signaling pathways.
Title: Role of synaptotagmin 13 (SYT13) in promoting breast cancer and signaling pathways.
The highly expressed calcium-insensitive synaptotagmin-11 and synaptotagmin-13 modulate insulin secretion.
Title: The highly expressed calcium-insensitive synaptotagmin-11 and synaptotagmin-13 modulate insulin secretion.
Synaptotagmin 13 Is Highly Expressed in Estrogen Receptor-Positive Breast Cancer.
Title: Synaptotagmin 13 Is Highly Expressed in Estrogen Receptor-Positive Breast Cancer.
Synaptotagmin 13 is neuroprotective across motor neuron diseases.
Title: Synaptotagmin 13 is neuroprotective across motor neuron diseases.
Identification SYT13 as a novel biomarker in lung adenocarcinoma.
Title: Identification SYT13 as a novel biomarker in lung adenocarcinoma.
Silencing of synaptotagmin 13 inhibits tumor growth through suppressing proliferation and promoting apoptosis of colorectal cancer cells.
Title: Silencing of synaptotagmin 13 inhibits tumor growth through suppressing proliferation and promoting apoptosis of colorectal cancer cells.
SYT13 levels were significantly associated with shorter peritoneal recurrence-free survival (PRFS) and overall survival in patients with gastric cancer; positive levels of SYT13 and CEA mRNA demonstrated the highest hazards ratio for peritoneal recurrence
Title: The levels of SYT13 and CEA mRNAs in peritoneal lavages predict the peritoneal recurrence of gastric cancer.
SYT13 expression in gastric cancer is associated with peritoneal metastases.
Title: Synaptotagmin XIII expression and peritoneal metastasis in gastric cancer.

Submit: New GeneRIF Correction See all GeneRIFs (13)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Tat	tat	FITC-labeled Tat 47-59 peptide downregulates gene expression of synaptotagmin XIII (SYT13) in U-937 macrophages	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH18313 (e-PCR)
- UniSTS:63018

NoName (e-PCR)
- UniSTS:480820

NoName (e-PCR)
- UniSTS:483650

Syt13 (e-PCR), detects polymorphism
- UniSTS:507260

D11S3115 (e-PCR)
- UniSTS:152208

WI-14707 (e-PCR)
- UniSTS:76281

HSC1SF092 (e-PCR)
- UniSTS:76282

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables SNARE binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion sensor activity	IBA Inferred from Biological aspect of Ancestor more info
enables calcium-dependent phospholipid binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in calcium-dependent activation of synaptic vesicle fusion	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of calcium ion-dependent exocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of synaptic vesicle exocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in axon	IBA Inferred from Biological aspect of Ancestor more info
is_active_in dense core granule	IBA Inferred from Biological aspect of Ancestor more info
is_active_in exocytic vesicle	IBA Inferred from Biological aspect of Ancestor more info
located_in intracellular membrane-bounded organelle	IDA Inferred from Direct Assay more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in synapse	IEA Inferred from Electronic Annotation more info
is_active_in synaptic vesicle membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in transport vesicle	IDA Inferred from Direct Assay more info

General protein information

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Preferred Names: synaptotagmin-13

Names: synaptotagmin XIII; sytXIII

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)

NM_001247987.2 → NP_001234916.1 synaptotagmin-13 isoform 2

Status: REVIEWED

Description

Transcript Variant: This variant (2) contains additional exons in the 5' end, which result in the use of a downstream start codon, compared to variant 1. The resulting protein (isoform 2) is shorter when it is compared to isoform 1.

Source sequence(s)

AC103681, AC103736, AK308841, W45345

Conserved Domains (2) summary

cd08407
Location:144 → 281

C2B_Synaptotagmin-13; C2 domain second repeat present in Synaptotagmin 13

cd08677
Location:16 → 133

C2A_Synaptotagmin-13; C2 domain
NM_020826.3 → NP_065877.1 synaptotagmin-13 isoform 1

See identical proteins and their annotated locations for NP_065877.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) encodes the longer protein (isoform 1).

Source sequence(s)

AB037848, AC103681, AC103736, AL512743, BP251101

Consensus CDS

CCDS31470.1

UniProtKB/Swiss-Prot

A8K4P4, D3DQP1, Q7L8C5, Q9BQS3, Q9H041, Q9P2C0

Related

ENSP00000020926.3, ENST00000020926.8

Conserved Domains (2) summary

cd08407
Location:288 → 425

C2B_Synaptotagmin-13; C2 domain second repeat present in Synaptotagmin 13

cd08677
Location:160 → 277

C2A_Synaptotagmin-13; C2 domain