Syt6 synaptotagmin VI [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Syt6provided by MGI
Official Full Name: synaptotagmin VIprovided by MGI
Primary source: MGI:MGI:1859544
See related: Ensembl:ENSMUSG00000027849 AllianceGenome:MGI:1859544
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: sytVI; 3110037A08Rik
Summary: Enables calcium-dependent protein binding activity; phospholipid binding activity; and protein dimerization activity. Involved in acrosome reaction. Located in cytoplasmic side of plasma membrane; cytosol; and perinuclear endoplasmic reticulum. Is expressed in several structures, including alimentary system; genitourinary system; integumental system; nervous system; and sensory organ. Orthologous to human SYT6 (synaptotagmin 6). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in frontal lobe adult (RPKM 13.3), CNS E18 (RPKM 5.5) and 6 other tissues See more
Orthologs: human all
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Genomic context

Location:: 3 F2.2; 3 45.45 cM

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	3	NC_000069.7 (103482561..103552883)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	3	NC_000069.6 (103575245..103645567)

Chromosome 3 - NC_000069.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Targeted (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH142700 (e-PCR)
- UniSTS:231947

AW048930 (e-PCR)
- UniSTS:164217

Syt6 (e-PCR), detects polymorphism
- UniSTS:507265

Gene Ontology Provided by MGI

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
enables calcium-dependent phospholipid binding	IDA Inferred from Direct Assay more info	PubMed
enables calcium-dependent protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables clathrin binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylserine binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
NOT enables protein heterodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables protein heterodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IDA Inferred from Direct Assay more info	PubMed
NOT enables protein homodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables syntaxin binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in acrosomal vesicle exocytosis	ISO Inferred from Sequence Orthology more info
involved_in acrosome reaction	IDA Inferred from Direct Assay more info	PubMed
involved_in chemical synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in postsynaptic dense core vesicle exocytosis	ISO Inferred from Sequence Orthology more info
involved_in regulation of calcium ion-dependent 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
located_in cytoplasmic side of plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IEA Inferred from Electronic Annotation more info
is_active_in exocytic vesicle	IBA Inferred from Biological aspect of Ancestor more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear endoplasmic reticulum	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
is_active_in synaptic membrane	ISO Inferred from Sequence Orthology more info
located_in synaptic vesicle membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: synaptotagmin-6

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_001276676.3 → NP_001263605.1 synaptotagmin-6 isoform 2

See identical proteins and their annotated locations for NP_001263605.1

Status: VALIDATED

Source sequence(s)

AC123057

UniProtKB/TrEMBL

Q05BE2, Q8C8S6

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:279 → 412

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
NM_001276677.3 → NP_001263606.1 synaptotagmin-6 isoform 3

See identical proteins and their annotated locations for NP_001263606.1

Status: VALIDATED

Source sequence(s)

AC123057

Consensus CDS

CCDS71296.1

UniProtKB/TrEMBL

Q6P1H9, Q8C8S6

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:279 → 412

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
NM_001276679.2 → NP_001263608.1 synaptotagmin-6 isoform 3

See identical proteins and their annotated locations for NP_001263608.1

Status: VALIDATED

Source sequence(s)

AC123057

Consensus CDS

CCDS71296.1

UniProtKB/TrEMBL

Q6P1H9, Q8C8S6

Related

ENSMUSP00000112486.2, ENSMUST00000118117.8

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:279 → 412

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
NM_001276680.2 → NP_001263609.1 synaptotagmin-6 isoform 4

See identical proteins and their annotated locations for NP_001263609.1

Status: VALIDATED

Source sequence(s)

AC123057

Consensus CDS

CCDS71297.1

UniProtKB/TrEMBL

Q3UY13

Related

ENSMUSP00000113287.2, ENSMUST00000118563.3

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cl14603
Location:279 → 314

C2; C2 domain
NM_001276681.2 → NP_001263610.1 synaptotagmin-6 isoform 3

See identical proteins and their annotated locations for NP_001263610.1

Status: VALIDATED

Source sequence(s)

AC123057

Consensus CDS

CCDS71296.1

UniProtKB/TrEMBL

Q6P1H9, Q8C8S6

Related

ENSMUSP00000113373.2, ENSMUST00000117221.9

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:279 → 412

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
NM_001428812.1 → NP_001415741.1 synaptotagmin-6 isoform 5

Status: VALIDATED

Source sequence(s)

AC123057
NM_001428813.1 → NP_001415742.1 synaptotagmin-6 isoform 6

Status: VALIDATED

Source sequence(s)

AC123057

UniProtKB/TrEMBL

A0A5F8MPS8
NM_001428814.1 → NP_001415743.1 synaptotagmin-6 isoform 7

Status: VALIDATED

Source sequence(s)

AC123057

UniProtKB/TrEMBL

Q05BE2
NM_001428815.1 → NP_001415744.1 synaptotagmin-6 isoform 2

Status: VALIDATED

Source sequence(s)

AC123057

UniProtKB/TrEMBL

Q05BE2
NM_001428816.1 → NP_001415745.1 synaptotagmin-6 isoform 2

Status: VALIDATED

Source sequence(s)

AC123057

UniProtKB/TrEMBL

Q05BE2
NM_001428817.1 → NP_001415746.1 synaptotagmin-6 isoform 3

Status: VALIDATED

Source sequence(s)

AC123057

UniProtKB/TrEMBL

Q6P1H9
NM_001428818.1 → NP_001415747.1 synaptotagmin-6 isoform 3

Status: VALIDATED

Source sequence(s)

AC123057

UniProtKB/TrEMBL

Q6P1H9
NM_001428819.1 → NP_001415748.1 synaptotagmin-6 isoform 3

Status: VALIDATED

Source sequence(s)

AC123057

UniProtKB/TrEMBL

Q6P1H9
NM_018800.6 → NP_061270.2 synaptotagmin-6 isoform 1

See identical proteins and their annotated locations for NP_061270.2

Status: VALIDATED

Source sequence(s)

AC123057

Consensus CDS

CCDS38575.1

UniProtKB/Swiss-Prot

E9QJV2, Q9QUK7, Q9R0N8

UniProtKB/TrEMBL

Q8C8S6

Related

ENSMUSP00000088196.5, ENSMUST00000090697.11

Conserved Domains (2) summary

cd08385
Location:231 → 355

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:364 → 497

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000069.7 Reference GRCm39 C57BL/6J

Range

103482561..103552883

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036163165.1 → XP_036019058.1 synaptotagmin-6 isoform X4

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:279 → 412

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_006501704.5 → XP_006501767.1 synaptotagmin-6 isoform X1

Related

ENSMUSP00000159100.2, ENSMUST00000239027.2

Conserved Domains (2) summary

cd08385
Location:231 → 355

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:364 → 497

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_006501705.3 → XP_006501768.1 synaptotagmin-6 isoform X2

Conserved Domains (2) summary

cd08385
Location:231 → 355

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:364 → 497

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_006501707.4 → XP_006501770.1 synaptotagmin-6 isoform X3

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:279 → 412

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_006501706.3 → XP_006501769.1 synaptotagmin-6 isoform X3

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:279 → 412

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_006501708.3 → XP_006501771.1 synaptotagmin-6 isoform X3

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:279 → 412

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_030252690.2 → XP_030108550.1 synaptotagmin-6 isoform X3

UniProtKB/TrEMBL

Q05BE2, Q8C8S6

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:279 → 412

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_036163164.1 → XP_036019057.1 synaptotagmin-6 isoform X3

UniProtKB/TrEMBL

Q05BE2, Q8C8S6

Conserved Domains (2) summary

cd08385
Location:146 → 270

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08403
Location:279 → 412

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10