Aliases for SYCN Gene

Aliases for SYCN Gene

  • Syncollin 2 3 4 5
  • Insulin Synthesis-Associated Protein 1 3 4
  • Insulin Synthesis Associated 1 2 3
  • INSSA1 3 4
  • SYL 3 4

External Ids for SYCN Gene

Previous HGNC Symbols for SYCN Gene

  • INSSA1

Previous GeneCards Identifiers for SYCN Gene

  • GC19M044372
  • GC19M044385
  • GC19M039693
  • GC19M036140

Summaries for SYCN Gene

GeneCards Summary for SYCN Gene

SYCN (Syncollin) is a Protein Coding gene. Diseases associated with SYCN include Akinetopsia and Brachydactyly, Type D.

UniProtKB/Swiss-Prot Summary for SYCN Gene

  • Functions in exocytosis in pancreatic acinar cells regulating the fusion of zymogen granules with each other. May have a pore-forming activity on membranes and regulate exocytosis in other exocrine tissues (By similarity).

Additional gene information for SYCN Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SYCN Gene

Genomics for SYCN Gene

GeneHancer (GH) Regulatory Elements for SYCN Gene

Promoters and enhancers for SYCN 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
GH19J039204 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE 500.7 -0.6 -632 1.3 ZIC2 AFF1 TARDBP KLF7 ZNF740 MYC TOE1 CTBP1 PRPF4 ZEB1 SYCN HNRNPL RPS16 FBL ACTN4 PAK4 HSALNG0125984
GH19J039203 Enhancer 0.5 ENCODE 500.7 +0.2 210 0.2 PRPF4 EZH2 ZBTB33 SUZ12 CTCF HNRNPLL SYCN NCCRP1
GH19J039166 Promoter/Enhancer 1.3 Ensembl ENCODE dbSUPER 13.5 +36.9 36930 1.8 ZNF217 POLR2G USF1 ZFX ZIC2 CLOCK CTBP1 MXI1 SIN3A MYC PAK4 NCCRP1 SYCN RF00017-2977 lnc-PAK4-2
GH19J039170 Enhancer 0.7 Ensembl dbSUPER 13.5 +33.7 33665 0.8 ZIC2 POLR2A GLIS1 PRDM4 KLF1 EGR2 ZNF362 GLIS2 HNRNPL PATZ1 PAK4 NCCRP1 SYCN FBXO27 RF00017-2977 lnc-PAK4-2
GH19J038583 Enhancer 0.9 Ensembl ENCODE 5.2 +620.4 620366 3 SP1 EP300 TRIM22 TCF12 CBFB ARNT MEF2B NBN SMARCA5 IRF4 ZNF607 ZNF571 ZNF573 PAK4 SARS2 FBXO17 ZFP30 CATSPERG LGALS7B SYCN
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SYCN on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SYCN

Top Transcription factor binding sites by QIAGEN in the SYCN gene promoter:
  • AML1a
  • c-Ets-1
  • CREB
  • deltaCREB
  • GATA-1
  • MyoD
  • NRSF form 1
  • NRSF form 2

Genomic Locations for SYCN Gene

Genomic Locations for SYCN Gene
chr19:39,202,831-39,204,266
(GRCh38/hg38)
Size:
1,436 bases
Orientation:
Minus strand
chr19:39,693,471-39,694,906
(GRCh37/hg19)
Size:
1,436 bases
Orientation:
Minus strand

Genomic View for SYCN Gene

Genes around SYCN on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SYCN Gene

Proteins for SYCN Gene

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

    Protein Symbol:
    Q0VAF6-SYCN_HUMAN
    Recommended name:
    Syncollin
    Protein Accession:
    Q0VAF6

    Protein attributes for SYCN Gene

    Size:
    134 amino acids
    Molecular mass:
    14405 Da
    Quaternary structure:
    • Monomer and homooligomer; most probably hexameric. Interacts with GP2 (By similarity).

neXtProt entry for SYCN Gene

Post-translational modifications for SYCN Gene

Other Protein References for SYCN Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SYCN Gene

Domains & Families for SYCN Gene

Gene Families for SYCN Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SYCN Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SYCN Gene

GenScript: Design optimal peptide antigens:
  • Insulin synthesis-associated protein 1 (SYCN_HUMAN)
genes like me logo Genes that share domains with SYCN: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SYCN Gene

Function for SYCN Gene

Molecular function for SYCN Gene

UniProtKB/Swiss-Prot Function:
Functions in exocytosis in pancreatic acinar cells regulating the fusion of zymogen granules with each other. May have a pore-forming activity on membranes and regulate exocytosis in other exocrine tissues (By similarity).
genes like me logo Genes that share phenotypes with SYCN: view

Animal Models for SYCN Gene

MGI Knock Outs for SYCN:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SYCN

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for SYCN Gene

Localization for SYCN Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYCN Gene

Cytoplasmic vesicle, secretory vesicle membrane; Peripheral membrane protein; Lumenal side. Note=Localizes to zymogen granules. Associated with lipid rafts in a cholesterol-dependent manner. {ECO:0000250}.

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 SYCN gene
Compartment Confidence
extracellular 4
plasma membrane 1
cytoskeleton 1
mitochondrion 1
nucleus 1
endoplasmic reticulum 1
endosome 1
cytosol 1
lysosome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for SYCN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0030658 transport vesicle membrane IEA --
GO:0030667 secretory granule membrane IBA 21873635
GO:0031410 cytoplasmic vesicle IEA --
genes like me logo Genes that share ontologies with SYCN: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SYCN Gene

Pathways & Interactions for SYCN Gene

PathCards logo

SuperPathways for SYCN Gene

No Data Available

Interacting Proteins for SYCN Gene

Selected Interacting proteins: Q0VAF6-SYCN_HUMAN for SYCN Gene via IID

Symbol External ID(s) Details
STX1B
;

Gene Ontology (GO) - Biological Process for SYCN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006887 exocytosis IEA --
genes like me logo Genes that share ontologies with SYCN: view

No data available for Pathways by source and SIGNOR curated interactions for SYCN Gene

Drugs & Compounds for SYCN Gene

(3) Drugs for SYCN Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(1) Additional Compounds for SYCN Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with SYCN: view

Transcripts for SYCN Gene

mRNA/cDNA for SYCN Gene

1 REFSEQ mRNAs :
6 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SYCN

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

No ASD Table

Relevant External Links for SYCN Gene

GeneLoc Exon Structure for
SYCN

Expression for SYCN Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Pancreas (x52.8).

Protein differential expression in normal tissues from HIPED for SYCN Gene

This gene is overexpressed in Pancreas (35.5), Pancreatic juice (25.7), and Islet of Langerhans (7.7).

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



Protein tissue co-expression partners for SYCN Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SYCN

SOURCE GeneReport for Unigene cluster for SYCN Gene:

Hs.124123

Evidence on tissue expression from TISSUES for SYCN Gene

  • Pancreas(4)
genes like me logo Genes that share expression patterns with SYCN: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYCN Gene

Orthologs for SYCN Gene

This gene was present in the common ancestor of chordates.

Orthologs for SYCN Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYCN 31 30
  • 98.76 (n)
OneToOne
dog
(Canis familiaris)
Mammalia SYCN 31 30
  • 84.46 (n)
OneToOne
cow
(Bos Taurus)
Mammalia SYCN 31 30
  • 84.18 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sycn 30
  • 76.69 (n)
mouse
(Mus musculus)
Mammalia Sycn 17 31 30
  • 75.94 (n)
chicken
(Gallus gallus)
Aves SYCN 30
  • 66.96 (n)
lizard
(Anolis carolinensis)
Reptilia SYCN 31
  • 53 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100486753 30
  • 57.89 (n)
zebrafish
(Danio rerio)
Actinopterygii SYCN (1 of 2) 31
  • 43 (a)
OneToMany
CR450711.2 31
  • 42 (a)
OneToMany
Species where no ortholog for SYCN 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • 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 SYCN Gene

ENSEMBL:
Gene Tree for SYCN (if available)
TreeFam:
Gene Tree for SYCN (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SYCN: view image

Paralogs for SYCN Gene

No data available for Paralogs for SYCN Gene

Variants for SYCN Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SYCN Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
rs2082416 - p.Leu111Met

Additional dbSNP identifiers (rs#s) for SYCN Gene

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

Variant ID Type Subtype PubMed ID
nsv833829 CNV loss 17160897
nsv953571 CNV deletion 24416366

Variation tolerance for SYCN Gene

Residual Variation Intolerance Score: 74.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.52; 11.29% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SYCN Gene

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

SNP Genotyping and Copy Number Assay Products

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

Disorders for SYCN Gene

MalaCards: The human disease database

(4) MalaCards diseases for SYCN Gene - From: DISEASES

Disorder Aliases PubMed IDs
akinetopsia
brachydactyly, type d
  • bdd
optic papillitis
  • papillitis
noonan syndrome 1
  • ns1
- elite association - COSMIC cancer census association via MalaCards
Search SYCN in MalaCards View complete list of genes associated with diseases

Additional Disease Information for SYCN

genes like me logo Genes that share disorders with SYCN: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SYCN Gene

Publications for SYCN Gene

  1. Loss of the zymogen granule protein syncollin affects pancreatic protein synthesis and transport but not secretion. (PMID: 11839820) Antonin W … Jahn R (Molecular and cellular biology 2002) 2 3 54
  2. Validation of four candidate pancreatic cancer serological biomarkers that improve the performance of CA19.9. (PMID: 24007603) Makawita S … Diamandis EP (BMC cancer 2013) 3 54
  3. Interleukin 28B polymorphisms are the only common genetic variants associated with low-density lipoprotein cholesterol (LDL-C) in genotype-1 chronic hepatitis C and determine the association between LDL-C and treatment response. (PMID: 22497812) Clark PJ … IDEAL investigators (Journal of viral hepatitis 2012) 41 54
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3 54
  5. The secretory granule protein syncollin localizes to HL-60 cells and neutrophils. (PMID: 16517980) Bach JP … Schrader M (The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society 2006) 23 54

Products for SYCN Gene

Sources for SYCN Gene