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Sytl3 synaptotagmin-like 3 [ Mus musculus (house mouse) ]

Gene ID: 83672, updated on 18-Sep-2024

Summary

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Official Symbol
Sytl3provided by MGI
Official Full Name
synaptotagmin-like 3provided by MGI
Primary source
MGI:MGI:1933367
See related
Ensembl:ENSMUSG00000041831 AllianceGenome:MGI:1933367
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
Slp3; Slp3-a; Slp3-b; mFLJ00307; A430092N21
Summary
Enables calcium-dependent phospholipid binding activity and neurexin family protein binding activity. Acts upstream of or within exocytosis. Located in membrane. Is extrinsic component of plasma membrane. Is expressed in several structures, including genitourinary system; hemolymphoid system; lung; and olfactory epithelium. Orthologous to human SYTL3 (synaptotagmin like 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in thymus adult (RPKM 5.7), bladder adult (RPKM 1.3) and 10 other tissues See more
Orthologs
human all
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Genomic context

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See Sytl3 in Genome Data Viewer
Location:
17 4.33 cM; 17 A1
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (6925633..7005449)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (6658133..6738070)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene transmembrane protein 181C, pseudogene Neighboring gene STARR-positive B cell enhancers mm9_chr17:6600655-6600955 and mm9_chr17:6860503-6860804 Neighboring gene dynein light chain Tctex-type 1F Neighboring gene predicted gene, 36309 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:6949847-6950048 Neighboring gene STARR-seq mESC enhancer starr_41734 Neighboring gene ezrin Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:6982099-6982286 Neighboring gene STARR-positive B cell enhancer ABC_E2469 Neighboring gene RIKEN cDNA 4933426B08 gene Neighboring gene predicted gene 2885

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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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Related articles in PubMed

  1. The C2A domain of synaptotagmin-like protein 3 (Slp3) is an atypical calcium-dependent phospholipid-binding machine: comparison with the C2A domain of synaptotagmin I. Fukuda M. Biochem J, 2002 Sep 1. PMID 12049610, Free PMC Article
  2. Novel splicing isoforms of synaptotagmin-like proteins 2 and 3: identification of the Slp homology domain. Fukuda M, et al. Biochem Biophys Res Commun, 2001 May 4. PMID 11327731
  3. Synaptotagmin-like protein 1-3: a novel family of C-terminal-type tandem C2 proteins. Fukuda M, et al. Biochem Biophys Res Commun, 2001 Mar. PMID 11243866
  4. Slp4-a/granuphilin-a inhibits dense-core vesicle exocytosis through interaction with the GDP-bound form of Rab27A in PC12 cells. Fukuda M. J Biol Chem, 2003 Apr 25. PMID 12590134
  5. The Slp homology domain of synaptotagmin-like proteins 1-4 and Slac2 functions as a novel Rab27A binding domain. Kuroda TS, et al. J Biol Chem, 2002 Mar 15. PMID 11773082

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

General gene information

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Markers

Homology

Clone Names

  • MGC117869, MGC156450

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables calcium-dependent phospholipid binding IDA
Inferred from Direct Assay
more info
 PubMed 
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 phospholipid binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables small GTPase binding IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding NAS
Non-traceable Author Statement
more info
 PubMed 
Process Evidence Code Pubs
involved_in exocytosis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within exocytosis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in intracellular protein transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in endomembrane system IEA
Inferred from Electronic Annotation
more info
  
is_active_in exocytic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
  
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 

General protein information

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Preferred Names
synaptotagmin-like protein 3
Names
exophilin-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)

  1. NM_031395.3 → NP_113572.1  synaptotagmin-like protein 3 isoform a

    See identical proteins and their annotated locations for NP_113572.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a, also known as Slp3-a).
    Source sequence(s)
    AC167249, AC168090
    Consensus CDS
    CCDS28372.2
    UniProtKB/Swiss-Prot
    Q3KQQ0, Q8C506, Q99N47, Q99N48, Q99N49, Q99N54, Q99N79
    UniProtKB/TrEMBL
    Q0VF85
    Related
    ENSMUSP00000095041.3, ENSMUST00000097430.10
    Conserved Domains (5) summary
    cd04020
    Location:447 → 607
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cl28890
    Location:60 → 108
    FYVE_like_SF; FYVE domain like superfamily
    pfam13836
    Location:200 → 292
    DUF4195; Domain of unknown function (DUF4195)
    cl14603
    Location:306 → 433
    C2; C2 domain
    cl22851
    Location:14 → 123
    PHD_SF; PHD finger superfamily

  2. NM_183368.2 → NP_899224.2  synaptotagmin-like protein 3 isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks several exons in the 5' coding region, and uses a downstream translation start codon, compared to variant 1. The resulting isoform (b, also known as Slp3-b) is shorter at the N-terminus, compared to isoform a.
    Source sequence(s)
    AC168090, BB031741, BC118936
    Consensus CDS
    CCDS28373.2
    UniProtKB/TrEMBL
    E9PUK9
    Related
    ENSMUSP00000123996.3, ENSMUST00000160483.9
    Conserved Domains (3) summary
    cd04020
    Location:242 → 402
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd08392
    Location:101 → 228
    C2A_SLP-3; C2 domain first repeat present in Synaptotagmin-like protein 3
    pfam13836
    Location:18 → 88
    DUF4195; Domain of unknown function (DUF4195)

  3. NM_183370.2 → NP_899226.2  synaptotagmin-like protein 3 isoform 3SIII

    See identical proteins and their annotated locations for NP_899226.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, lacks three exons in the 5' coding region, and uses a downstream translation start codon, compared to variant 1. The resulting isoform (3SIII) is shorter at the N-terminus, compared to isoform a.
    Source sequence(s)
    AC168090, BB031741, BC118936
    Consensus CDS
    CCDS28374.3
    UniProtKB/Swiss-Prot
    Q99N48
    UniProtKB/TrEMBL
    Q0VF85
    Related
    ENSMUST00000231743.2
    Conserved Domains (2) summary
    cd04020
    Location:252 → 412
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd08392
    Location:111 → 238
    C2A_SLP-3; C2 domain first repeat present in Synaptotagmin-like protein 3

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

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    6925633..7005449
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011246181.4 → XP_011244483.1  synaptotagmin-like protein 3 isoform X1

    See identical proteins and their annotated locations for XP_011244483.1

    UniProtKB/Swiss-Prot
    Q3KQQ0, Q8C506, Q99N47, Q99N48, Q99N49, Q99N54, Q99N79
    UniProtKB/TrEMBL
    Q0VF85
    Conserved Domains (5) summary
    cd04020
    Location:447 → 607
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cl28890
    Location:60 → 108
    FYVE_like_SF; FYVE domain like superfamily
    pfam13836
    Location:200 → 292
    DUF4195; Domain of unknown function (DUF4195)
    cl14603
    Location:306 → 433
    C2; C2 domain
    cl22851
    Location:14 → 123
    PHD_SF; PHD finger superfamily

  2. XM_036160856.1 → XP_036016749.1  synaptotagmin-like protein 3 isoform X2

    UniProtKB/TrEMBL
    Q0VF85
    Conserved Domains (4) summary
    cd04020
    Location:381 → 541
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cl28890
    Location:60 → 108
    FYVE_like_SF; FYVE domain like superfamily
    cl14603
    Location:240 → 367
    C2; C2 domain
    cl22851
    Location:14 → 123
    PHD_SF; PHD finger superfamily

  3. XM_006523260.2 → XP_006523323.1  synaptotagmin-like protein 3 isoform X3

    Conserved Domains (4) summary
    cl28890
    Location:60 → 108
    FYVE_like_SF; FYVE domain like superfamily
    pfam13836
    Location:200 → 292
    DUF4195; Domain of unknown function (DUF4195)
    cl14603
    Location:306 → 433
    C2; C2 domain
    cl22851
    Location:14 → 123
    PHD_SF; PHD finger superfamily

  4. XM_006523261.5 → XP_006523324.1  synaptotagmin-like protein 3 isoform X4

    See identical proteins and their annotated locations for XP_006523324.1

    UniProtKB/Swiss-Prot
    Q99N48
    Conserved Domains (2) summary
    cd04020
    Location:252 → 412
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd08392
    Location:111 → 238
    C2A_SLP-3; C2 domain first repeat present in Synaptotagmin-like protein 3

  5. XM_006523259.4 → XP_006523322.1  synaptotagmin-like protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006523322.1

    UniProtKB/Swiss-Prot
    Q3KQQ0, Q8C506, Q99N47, Q99N48, Q99N49, Q99N54, Q99N79
    UniProtKB/TrEMBL
    Q0VF85
    Conserved Domains (5) summary
    cd04020
    Location:447 → 607
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cl28890
    Location:60 → 108
    FYVE_like_SF; FYVE domain like superfamily
    pfam13836
    Location:200 → 292
    DUF4195; Domain of unknown function (DUF4195)
    cl14603
    Location:306 → 433
    C2; C2 domain
    cl22851
    Location:14 → 123
    PHD_SF; PHD finger superfamily

  6. XM_036160857.1 → XP_036016750.1  synaptotagmin-like protein 3 isoform X4

    Conserved Domains (2) summary
    cd04020
    Location:252 → 412
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd08392
    Location:111 → 238
    C2A_SLP-3; C2 domain first repeat present in Synaptotagmin-like protein 3

  7. XM_036160858.1 → XP_036016751.1  synaptotagmin-like protein 3 isoform X4

    Conserved Domains (2) summary
    cd04020
    Location:252 → 412
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd08392
    Location:111 → 238
    C2A_SLP-3; C2 domain first repeat present in Synaptotagmin-like protein 3

  8. XM_006523264.2 → XP_006523327.1  synaptotagmin-like protein 3 isoform X4

    See identical proteins and their annotated locations for XP_006523327.1

    UniProtKB/Swiss-Prot
    Q99N48
    Conserved Domains (2) summary
    cd04020
    Location:252 → 412
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd08392
    Location:111 → 238
    C2A_SLP-3; C2 domain first repeat present in Synaptotagmin-like protein 3

RNA

  1. XR_001782133.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_183367.1: Suppressed sequence

    Description
    NM_183367.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.

  2. NM_183369.1: Suppressed sequence

    Description
    NM_183369.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q99N48.2 GenPept UniProtKB/Swiss-Prot:Q99N48

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