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Aliases for SYTL3 Gene

Aliases for SYTL3 Gene

  • Synaptotagmin Like 3 2 3 5
  • Exophilin-6 3 4
  • SLP3 3 4
  • Synaptotagmin-Like Protein 3 3

External Ids for SYTL3 Gene

Previous GeneCards Identifiers for SYTL3 Gene

  • GC06P158521
  • GC06P158944
  • GC06P158980
  • GC06P159041
  • GC06P158991
  • GC06P159071
  • GC06P156541

Summaries for SYTL3 Gene

Entrez Gene Summary for SYTL3 Gene

  • The protein encoded by this gene belongs to a family of peripheral membrane proteins that play a role in vesicular trafficking. This protein binds phospholipids in the presence of calcium ions. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2016]

GeneCards Summary for SYTL3 Gene

SYTL3 (Synaptotagmin Like 3) is a Protein Coding gene. Among its related pathways are Deregulation of Rab and Rab Effector Genes in Bladder Cancer. Gene Ontology (GO) annotations related to this gene include calcium ion binding and Rab GTPase binding. An important paralog of this gene is SYTL5.

UniProtKB/Swiss-Prot for SYTL3 Gene

  • May act as Rab effector protein and play a role in vesicle trafficking. Binds phospholipids in the presence of calcium ions (By similarity).

Additional gene information for SYTL3 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYTL3 Gene

Genomics for SYTL3 Gene

GeneHancer (GH) Regulatory Elements for SYTL3 Gene

Promoters and enhancers for SYTL3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06I158641 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 559.8 -0.3 -294 5.7 HDGF PKNOX1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 POLR2B ZNF766 DYNLT1 SYTL3 TMEM181 GTF2H5 PIR53252
GH06I158648 Promoter/Enhancer 2.2 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 579.3 +7.4 7441 8.2 HDGF PKNOX1 SMAD1 MLX IRF4 ZNF48 SLC30A9 ZNF143 ATF7 FOS SYTL3 DYNLT1 TATDN2P2 TAGAP LOC442272 RNU6-293P TMEM181 AMZ2P2
GH06I158662 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE dbSUPER 559.9 +18.5 18516 2.4 L3MBTL2 RNF2 HLF MAX CEBPG ZIC2 ZNF217 CTBP1 PRDM6 GLIS1 SYTL3 TATDN2P2 AMZ2P2
GH06I158685 Enhancer 1.2 FANTOM5 Ensembl ENCODE dbSUPER 32.4 +42.3 42347 3 SREBF1 MEIS2 PKNOX1 USF1 MAFK RUNX3 SYTL3 DYNLT1 TATDN2P2 LOC442272 RNU6-293P TAGAP EZR AMZ2P2
GH06I158703 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 17.6 +61.2 61196 5.7 HDGF PKNOX1 MLX ARID4B SIN3A DMAP1 ZNF2 SLC30A9 ZNF766 E2F8 SYTL3 DYNLT1 LOC442272 RNU6-293P TMEM181 TULP4 AMZ2P2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SYTL3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SYTL3 gene promoter:

Genomic Locations for SYTL3 Gene

Genomic Locations for SYTL3 Gene
chr6:158,644,899-158,764,876
(GRCh38/hg38)
Size:
119,978 bases
Orientation:
Plus strand
chr6:159,071,046-159,185,908
(GRCh37/hg19)

Genomic View for SYTL3 Gene

Genes around SYTL3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYTL3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYTL3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYTL3 Gene

Proteins for SYTL3 Gene

  • Protein details for SYTL3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q4VX76-SYTL3_HUMAN
    Recommended name:
    Synaptotagmin-like protein 3
    Protein Accession:
    Q4VX76
    Secondary Accessions:
    • Q496J4
    • Q496J6
    • Q5U3B9

    Protein attributes for SYTL3 Gene

    Size:
    610 amino acids
    Molecular mass:
    68560 Da
    Quaternary structure:
    • Monomer. Binds NRXN1. Binds RAB27A that has been activated by GTP-binding via its N-terminus (By similarity).

    Alternative splice isoforms for SYTL3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SYTL3 Gene

Post-translational modifications for SYTL3 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SYTL3 Gene

Domains & Families for SYTL3 Gene

Gene Families for SYTL3 Gene

Protein Domains for SYTL3 Gene

Suggested Antigen Peptide Sequences for SYTL3 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SYTL3: view

No data available for UniProtKB/Swiss-Prot for SYTL3 Gene

Function for SYTL3 Gene

Molecular function for SYTL3 Gene

UniProtKB/Swiss-Prot Function:
May act as Rab effector protein and play a role in vesicle trafficking. Binds phospholipids in the presence of calcium ions (By similarity).

Phenotypes From GWAS Catalog for SYTL3 Gene

Gene Ontology (GO) - Molecular Function for SYTL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IBA --
GO:0005543 phospholipid binding IEA --
GO:0005544 calcium-dependent phospholipid binding IBA --
GO:0017137 Rab GTPase binding IEA --
GO:0019905 syntaxin binding IBA --
genes like me logo Genes that share ontologies with SYTL3: view
genes like me logo Genes that share phenotypes with SYTL3: view

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SYTL3 Gene

Localization for SYTL3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYTL3 Gene

Endomembrane system; Peripheral membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SYTL3 gene
Compartment Confidence
plasma membrane 3
nucleus 3
cytosol 3

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli fibrillar center (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SYTL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IBA --
GO:0012505 endomembrane system IEA --
GO:0016020 membrane IEA --
GO:0019897 extrinsic component of plasma membrane IEA --
GO:0045202 synapse IEA --
genes like me logo Genes that share ontologies with SYTL3: view

Pathways & Interactions for SYTL3 Gene

genes like me logo Genes that share pathways with SYTL3: view

Pathways by source for SYTL3 Gene

Gene Ontology (GO) - Biological Process for SYTL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport IEA --
GO:0006887 exocytosis IEA --
GO:0006906 vesicle fusion IBA --
GO:0017158 regulation of calcium ion-dependent exocytosis IBA --
GO:0048791 calcium ion-regulated exocytosis of neurotransmitter IBA --
genes like me logo Genes that share ontologies with SYTL3: view

No data available for SIGNOR curated interactions for SYTL3 Gene

Drugs & Compounds for SYTL3 Gene

(2) Drugs for SYTL3 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Approved Nutra 0
Guanosine triphosphate Experimental Pharma 0
genes like me logo Genes that share compounds with SYTL3: view

Transcripts for SYTL3 Gene

Unigene Clusters for SYTL3 Gene

Synaptotagmin-like 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYTL3 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b · 3c · 3d ^ 4 ^ 5a · 5b ^ 6a · 6b · 6c ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^
SP1: - - - - - - -
SP2: - - - - - - - - - -
SP3: - -
SP4: - - - - - - - - -
SP5: - - - - - - - -
SP6: - - - - - - -
SP7:
SP8: - - - - - -
SP9: -
SP10: - - -
SP11: - -
SP12:

ExUns: 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22a · 22b · 22c
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7: -
SP8:
SP9:
SP10:
SP11:
SP12:

Relevant External Links for SYTL3 Gene

GeneLoc Exon Structure for
SYTL3
ECgene alternative splicing isoforms for
SYTL3

Expression for SYTL3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYTL3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SYTL3 Gene

This gene is overexpressed in Whole Blood (x16.1).

Protein differential expression in normal tissues from HIPED for SYTL3 Gene

This gene is overexpressed in Urine (65.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SYTL3 Gene



Protein tissue co-expression partners for SYTL3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SYTL3 Gene:

SYTL3

SOURCE GeneReport for Unigene cluster for SYTL3 Gene:

Hs.436977
genes like me logo Genes that share expression patterns with SYTL3: view

No data available for mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYTL3 Gene

Orthologs for SYTL3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SYTL3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYTL3 33 34
  • 98.69 (n)
dog
(Canis familiaris)
Mammalia SYTL3 33 34
  • 84.92 (n)
cow
(Bos Taurus)
Mammalia SYTL3 33 34
  • 82.38 (n)
mouse
(Mus musculus)
Mammalia Sytl3 33 16 34
  • 82.32 (n)
rat
(Rattus norvegicus)
Mammalia Sytl3 33
  • 80.87 (n)
oppossum
(Monodelphis domestica)
Mammalia SYTL3 34
  • 66 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SYTL3 34
  • 58 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYTL3 33 34
  • 64.46 (n)
lizard
(Anolis carolinensis)
Reptilia SYTL3 34
  • 55 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sytl3 33
  • 61.09 (n)
zebrafish
(Danio rerio)
Actinopterygii sytl3 34
  • 35 (a)
OneToOne
Species where no ortholog for SYTL3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SYTL3 Gene

ENSEMBL:
Gene Tree for SYTL3 (if available)
TreeFam:
Gene Tree for SYTL3 (if available)

Paralogs for SYTL3 Gene

Paralogs for SYTL3 Gene

(7) SIMAP similar genes for SYTL3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with SYTL3: view

Variants for SYTL3 Gene

Sequence variations from dbSNP and Humsavar for SYTL3 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000005766 -- 158,658,667(+) A/G genic_upstream_transcript_variant, intron_variant
rs1000007121 -- 158,733,560(+) C/T intron_variant
rs1000011392 -- 158,697,782(+) C/T genic_upstream_transcript_variant, intron_variant
rs1000044152 -- 158,711,955(+) C/T genic_upstream_transcript_variant, intron_variant
rs1000080977 -- 158,739,738(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SYTL3 Gene

Variant ID Type Subtype PubMed ID
nsv949875 CNV duplication 24416366
nsv823894 CNV loss 20364138
nsv823893 CNV loss 20364138
nsv5562 CNV insertion 18451855
nsv528709 CNV loss 19592680
nsv528373 CNV loss 19592680
nsv523641 CNV gain 19592680
nsv478339 CNV novel sequence insertion 20440878
nsv349192 CNV deletion 16902084
nsv1153026 CNV deletion 26484159
nsv1152331 CNV deletion 26484159
nsv1133387 CNV tandem duplication 24896259
nsv1121659 CNV deletion 24896259
esv3611403 CNV loss 21293372
esv3611402 CNV loss 21293372
esv3611400 CNV loss 21293372
esv3540748 CNV deletion 23714750
esv3540747 CNV deletion 23714750
esv3395272 CNV insertion 20981092
esv3339618 CNV insertion 20981092
esv2733014 CNV deletion 23290073
esv2733013 CNV deletion 23290073
esv2733003 CNV deletion 23290073
esv2733002 CNV deletion 23290073
esv2733001 CNV deletion 23290073
esv2678909 CNV deletion 23128226
esv2663267 CNV deletion 23128226
esv2587253 CNV insertion 19546169
esv24318 CNV loss 19812545
esv2134507 CNV deletion 18987734
dgv1029e201 CNV deletion 23290073
dgv1028e201 CNV deletion 23290073

Variation tolerance for SYTL3 Gene

Residual Variation Intolerance Score: 89.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 14.33; 96.31% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SYTL3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYTL3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYTL3 Gene

Disorders for SYTL3 Gene

Additional Disease Information for SYTL3

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SYTL3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYTL3 Gene

Publications for SYTL3 Gene

  1. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 44 58
  2. The Slp homology domain of synaptotagmin-like proteins 1-4 and Slac2 functions as a novel Rab27A binding domain. (PMID: 11773082) Kuroda TS … Mikoshiba K (The Journal of biological chemistry 2002) 2 3 58
  3. 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. (PMID: 12049610) Fukuda M (The Biochemical journal 2002) 3 22 58
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  5. Rab27a controls HIV-1 assembly by regulating plasma membrane levels of phosphatidylinositol 4,5-bisphosphate. (PMID: 25940347) Gerber PP … Ostrowski M (The Journal of cell biology 2015) 3 58

Products for SYTL3 Gene

Sources for SYTL3 Gene

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