Sytl2 synaptotagmin-like 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Sytl2provided by MGI
Official Full Name: synaptotagmin-like 2provided by MGI
Primary source: MGI:MGI:1933366
See related: Ensembl:ENSMUSG00000030616 AllianceGenome:MGI:1933366
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: Slp2; mKIAA1597
Summary: Enables neurexin family protein binding activity. Involved in exocytosis and positive regulation of mucus secretion. Acts upstream of or within protein localization to plasma membrane. Located in melanosome and plasma membrane. Is extrinsic component of plasma membrane. Is expressed in several structures, including genitourinary system; heart; liver; lung; and spleen. Orthologous to human SYTL2 (synaptotagmin like 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in bladder adult (RPKM 10.4), cortex adult (RPKM 7.5) and 11 other tissues See more
Orthologs: human all
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Genomic context

Location:: 7 E1; 7 50.54 cM

Exon count:: 22

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	7	NC_000073.7 (89951421..90059927)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	7	NC_000073.6 (90302211..90410719)

Chromosome 7 - NC_000073.7 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?

Our findings indicate that Slp2-a controls renal cell size through regulation of Rap-ezrin signaling independently of Rab27.
Title: Slp2-a controls renal epithelial cell size through regulation of Rap-ezrin signaling independently of Rab27.
Slp2-a is required for targeting of the signaling molecule podocalyxin to the apical membrane in a Rab27A-dependent manner.
Title: Rab27 effector Slp2-a transports the apical signaling molecule podocalyxin to the apical surface of MDCK II cells and regulates claudin-2 expression.
Calmodulin suppresses synaptotagmin-2 transcription in cortical neurons
Title: Calmodulin suppresses synaptotagmin-2 transcription in cortical neurons.
Stress-induced mitochondrial hyperfusion (SIMH) is independent of MFN2, BAX/BAK, and prohibitins, but requires L-OPA1, MFN1, and the mitochondrial inner membrane protein SLP-2.
Title: SLP-2 is required for stress-induced mitochondrial hyperfusion.
Syt2 can serve as an exocytic sensor for diverse Ca(2+) signaling systems, and its levels are limiting for stimulated secretory function in airway goblet cells
Title: Synaptotagmin 2 couples mucin granule exocytosis to Ca2+ signaling from endoplasmic reticulum.
The observed structural complementation between the interacting surfaces of Rab27a and Exophilin4 sheds light on the disparities among the Rab27 effectors and outlines a general mechanism for their recruitment.[exophilin4]
Title: Elucidation of Rab27 recruitment by its effectors: structure of Rab27a bound to Exophilin4/Slp2-a.
The structural characterization of the Rab27a-exophilin4/Slp2-a complex will clarify Rab27 recognition by its effectors prior to vesicle tethering and docking.
Title: Purification, crystallization and preliminary X-ray crystallographic analysis of Rab27a GTPase in complex with exophilin4/Slp2-a effector.
These results suggest that both Slp1 and Slp2-a may form part of a docking complex, capturing secretory lysosomes at the immunological synapse.
Title: Slp1 and Slp2-a localize to the plasma membrane of CTL and contribute to secretion from the immunological synapse.
Loss of Slp2-a protein also induced a change in melanocyte morphology, from their normal elongated shape to a more rounded shape, which depended on the phospholipid-binding activity of Slp2-a
Title: Rab27A-binding protein Slp2-a is required for peripheral melanosome distribution and elongated cell shape in melanocytes.
Slp2-a is part of the mucin secretory machinery in surface mucous cells of mouse stomach
Title: Decreased basal mucus secretion by Slp2-a-deficient gastric surface mucous cells.

Submit: New GeneRIF Correction See all GeneRIFs (11)

Variation

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Alleles

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

Targeted (1) 1 citation
Endonuclease-mediated (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D7Cwr11D (e-PCR), detects polymorphism
- UniSTS:142666

Sytl2 (e-PCR), detects polymorphism
- UniSTS:225934

AI266830 (e-PCR)
- UniSTS:179607

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables neurexin family protein binding	IBA Inferred from Biological aspect of Ancestor more info
enables neurexin family protein binding	IDA Inferred from Direct Assay more info	PubMed
enables phosphatase binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol-4,5-bisphosphate binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylserine binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables small GTPase binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in exocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in exocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in exocytosis	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of mucus secretion	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein localization to plasma membrane	IDA Inferred from Direct Assay more info	PubMed
involved_in vesicle docking involved in exocytosis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in exocytic vesicle	IBA Inferred from Biological aspect of Ancestor more info
located_in exocytic vesicle	ISO Inferred from Sequence Orthology more info
located_in melanosome	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	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	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: synaptotagmin-like protein 2

Names: exophilin-4

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_001040085.2 → NP_001035174.1 synaptotagmin-like protein 2 isoform 2

See identical proteins and their annotated locations for NP_001035174.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon in the central coding region, compared to variant 6, resulting in an isoform (2, also known as Slp2-a delta 2S-II) that is shorter than isoform 6.

Source sequence(s)

AC100322, AK027924, AK051653, AK173212, BB622234, BC052915, BC060665, CJ165208

Consensus CDS

CCDS40018.1

UniProtKB/Swiss-Prot

Q99N50

UniProtKB/TrEMBL

Q69ZF4, Q7TMU6

Related

ENSMUSP00000102829.2, ENSMUST00000107211.8

Conserved Domains (3) summary

cd04020
Location:769 → 925

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:629 → 756

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
NM_001040087.2 → NP_001035176.1 synaptotagmin-like protein 2 isoform 4

See identical proteins and their annotated locations for NP_001035176.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks several 5' exons but contains an alternate 5' exon, and it thus differs in its 5' UTR, lacks a portion of the 5' coding region, and initiates translation from a downstream in-frame start codon, compared to variant 6. The encoded isoform (4, also known as Slp2-c) is shorter at the N-terminus, compared to isoform 6. Both variants 4 and 9 encode isoform 4.

Source sequence(s)

AK051653, BC060665

UniProtKB/TrEMBL

Q69ZF4

Conserved Domains (2) summary

cd04020
Location:211 → 367

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cl14603
Location:71 → 198

C2; C2 domain
NM_001040088.2 → NP_001035177.1 synaptotagmin-like protein 2 isoform 5

Status: VALIDATED

Description

Transcript Variant: This variant (5) lacks several 5' exons but contains an alternate 5' exon, it lacks an internal in-frame exon, and it thus differs in its 5' UTR, lacks a portion of the 5' coding region, and initiates translation from a downstream in-frame start codon, compared to variant 6. The encoded isoform (5) is shorter at the N-terminus, compared to isoform 6

Source sequence(s)

AK027924, AK051653

UniProtKB/TrEMBL

Q69ZF4

Related

ENSMUST00000208580.2

Conserved Domains (2) summary

cd04020
Location:171 → 327

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:31 → 158

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2
NM_001289583.1 → NP_001276512.1 synaptotagmin-like protein 2 isoform 6

See identical proteins and their annotated locations for NP_001276512.1

Status: VALIDATED

Description

Transcript Variant: This variant (6) encodes isoform 6 (also known as Slp2-a).

Source sequence(s)

AC100322, AK027924, AK051653, BB622234, BC052915, BC060665, CJ165208

Consensus CDS

CCDS80750.1

UniProtKB/Swiss-Prot

B2RS48, B7ZNS4, Q8BT37, Q99J89, Q99J90, Q99N50, Q99N51, Q99N52, Q99N55, Q99N56

Related

ENSMUSP00000139865.2, ENSMUST00000190731.7

Conserved Domains (3) summary

cd04020
Location:785 → 941

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:645 → 772

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
NM_001289584.1 → NP_001276513.1 synaptotagmin-like protein 2 isoform 7

See identical proteins and their annotated locations for NP_001276513.1

Status: VALIDATED

Description

Transcript Variant: This variant (7) uses an alternate in-frame splice site in the 5' coding region, compared to variant 6, resulting in an isoform (7, also known as Slp2-a delta 2S-I) that is shorter than isoform 6.

Source sequence(s)

AC100322, AK027924, AK051653, BB622234, BC052915, BC060665, CJ165208

Consensus CDS

CCDS80751.1

UniProtKB/Swiss-Prot

Q99N50

UniProtKB/TrEMBL

Q7TMU6

Related

ENSMUSP00000139450.2, ENSMUST00000190837.7

Conserved Domains (3) summary

cd04020
Location:758 → 914

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:618 → 745

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
NM_001289585.1 → NP_001276514.1 synaptotagmin-like protein 2 isoform 8

Status: VALIDATED

Description

Transcript Variant: This variant (8) lacks several 5' exons but contains an alternate 5' exon, it includes an additional internal exon, and it thus differs in its 5' UTR, lacks a portion of the 5' coding region, and initiates translation from a downstream in-frame start codon, compared to variant 6. The encoded isoform (8) is shorter at the N-terminus, compared to isoform 6

Source sequence(s)

AK051653, BC060665

UniProtKB/TrEMBL

Q69ZF4

Related

ENSMUST00000208809.2

Conserved Domains (2) summary

cd04020
Location:165 → 321

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:25 → 152

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2
NM_001289586.1 → NP_001276515.1 synaptotagmin-like protein 2 isoform 4

See identical proteins and their annotated locations for NP_001276515.1

Status: VALIDATED

Description

Transcript Variant: This variant (9) lacks several 5' exons but contains an alternate 5' exon, and it thus differs in its 5' UTR, lacks a portion of the 5' coding region, and initiates translation from a downstream in-frame start codon, compared to variant 6. The encoded isoform (4, also known as Slp2-c) is shorter at the N-terminus, compared to isoform 6. Both variants 4 and 9 encode isoform 4.

Source sequence(s)

AK027924, AK051653, BC060665

UniProtKB/TrEMBL

Q69ZF4

Related

ENSMUST00000208486.2

Conserved Domains (2) summary

cd04020
Location:211 → 367

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cl14603
Location:71 → 198

C2; C2 domain
NM_001368878.1 → NP_001355807.1 synaptotagmin-like protein 2 isoform 9

Status: VALIDATED

Description

Transcript Variant: This variant (11) represents the longest transcript and encodes the longest isoform (9).

Source sequence(s)

AC100322, AC158781

Consensus CDS

CCDS90269.1

UniProtKB/TrEMBL

A0A5F8MPH5

Conserved Domains (3) summary

cd04020
Location:1988 → 2144

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:1848 → 1975

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
NM_031394.3 → NP_113571.2 synaptotagmin-like protein 2 isoform 3

See identical proteins and their annotated locations for NP_113571.2

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks an alternate in-frame exon in the central coding region, compared to variant 6, resulting in an isoform (3, also known as Slp2-a delta 2S-III) that is shorter than isoform 6.

Source sequence(s)

AC100322, AK027924, AK051653, BB622234, BC052915, BC060665, CJ165208

Consensus CDS

CCDS40017.1

UniProtKB/Swiss-Prot

Q99N50

UniProtKB/TrEMBL

Q7TMU6

Related

ENSMUSP00000102828.2, ENSMUST00000107210.3

Conserved Domains (3) summary

cd04020
Location:745 → 901

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:605 → 732

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily

RNA

NR_110348.1 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (10) lacks several 3' exons but contains an alternate 3' terminal exon, compared to variant 6. This variant is represented as non-coding because it lacks a supported open reading frame, and the use of the 5'-most supported translational start codon, as used in variant 6, renders the transcript a candidate for non-stop mRNA decay.

Source sequence(s)

AC100322, BB622234, BC052915, CJ165208

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_000073.7 Reference GRCm39 C57BL/6J

Range

89951421..90059927

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006508356.4 → XP_006508419.1 synaptotagmin-like protein 2 isoform X2

Conserved Domains (3) summary

cd04020
Location:1972 → 2128

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:1832 → 1959

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
XM_006508357.5 → XP_006508420.1 synaptotagmin-like protein 2 isoform X3

UniProtKB/TrEMBL

A0A5F8MPX2

Related

ENSMUSP00000158979.2, ENSMUST00000190365.8

Conserved Domains (3) summary

cd04020
Location:1932 → 2088

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:1792 → 1919

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
XM_036153601.1 → XP_036009494.1 synaptotagmin-like protein 2 isoform X6

Conserved Domains (3) summary

cd04020
Location:1703 → 1859

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:1563 → 1690

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
XM_036153600.1 → XP_036009493.1 synaptotagmin-like protein 2 isoform X5

Conserved Domains (3) summary

cd04020
Location:1709 → 1865

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:1569 → 1696

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
XM_006508358.4 → XP_006508421.1 synaptotagmin-like protein 2 isoform X4

Conserved Domains (3) summary

cd04020
Location:1743 → 1899

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:1603 → 1730

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
XM_006508359.4 → XP_006508422.1 synaptotagmin-like protein 2 isoform X7

Conserved Domains (3) summary

cd04020
Location:1622 → 1778

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:1482 → 1609

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
XM_036153599.1 → XP_036009492.1 synaptotagmin-like protein 2 isoform X1

UniProtKB/TrEMBL

A0A5F8MPH5

Related

ENSMUSP00000158976.2, ENSMUST00000239078.2

Conserved Domains (3) summary

cd04020
Location:1988 → 2144

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:1848 → 1975

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

cl22851
Location:5 → 41

PHD_SF; PHD finger superfamily
XM_030243131.2 → XP_030098991.1 synaptotagmin-like protein 2 isoform X9

UniProtKB/TrEMBL

Q69ZF4

Related

ENSMUST00000209188.2

Conserved Domains (2) summary

cd04020
Location:165 → 321

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:25 → 152

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2
XM_036153602.1 → XP_036009495.1 synaptotagmin-like protein 2 isoform X8

UniProtKB/TrEMBL

Q69ZF4

Conserved Domains (2) summary

cd04020
Location:171 → 327

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd08393
Location:31 → 158

C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2

RNA

XR_004934225.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001040086.1: Suppressed sequence

Description

NM_001040086.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein, and the transcript is likely to be incomplete at the 5' end.