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Aliases for SDC2 Gene

Aliases for SDC2 Gene

  • Syndecan 2 2 3 5
  • Heparan Sulfate Proteoglycan 1, Cell Surface-Associated 2 3
  • Heparan Sulfate Proteoglycan Core Protein 3 4
  • Syndecan Proteoglycan 2 2 3
  • Fibroglycan 3 4
  • HSPG1 3 4
  • SYND2 3 4
  • HSPG 3 4
  • Cell Surface-Associated Heparan Sulfate Proteoglycan 1 3
  • CD362 Antigen 4
  • Syndecan-2 3
  • CD362 3

External Ids for SDC2 Gene

Previous HGNC Symbols for SDC2 Gene

  • HSPG
  • HSPG1

Previous GeneCards Identifiers for SDC2 Gene

  • GC08P097579
  • GC08P097174
  • GC08P097462
  • GC08P097575
  • GC08P092711

Summaries for SDC2 Gene

Entrez Gene Summary for SDC2 Gene

  • The protein encoded by this gene is a transmembrane (type I) heparan sulfate proteoglycan and is a member of the syndecan proteoglycan family. The syndecans mediate cell binding, cell signaling, and cytoskeletal organization and syndecan receptors are required for internalization of the HIV-1 tat protein. The syndecan-2 protein functions as an integral membrane protein and participates in cell proliferation, cell migration and cell-matrix interactions via its receptor for extracellular matrix proteins. Altered syndecan-2 expression has been detected in several different tumor types. [provided by RefSeq, Jul 2008]

GeneCards Summary for SDC2 Gene

SDC2 (Syndecan 2) is a Protein Coding gene. Diseases associated with SDC2 include Trichorhinophalangeal Syndrome, Type I and Chronic Cholangitis. Among its related pathways are Metabolism of fat-soluble vitamins and Wnt Signaling Pathways: beta-Catenin-dependent Wnt Signaling. GO annotations related to this gene include PDZ domain binding and cytoskeletal protein binding. An important paralog of this gene is SDC4.

UniProtKB/Swiss-Prot for SDC2 Gene

  • Cell surface proteoglycan that bears heparan sulfate. Regulates dendritic arbor morphogenesis (By similarity).

Gene Wiki entry for SDC2 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SDC2 Gene

Genomics for SDC2 Gene

Regulatory Elements for SDC2 Gene

Enhancers for SDC2 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH08F096858 1.5 FANTOM5 Ensembl ENCODE 5.1 +367.1 367124 3.9 HDAC1 TAL1 ZMYM3 RAD21 YY1 FOXK2 NCOR1 SCRT2 HES1 SCRT1 SDC2 CPQ GC08P096912 GC08P096734
GH08F096851 1.4 FANTOM5 Ensembl ENCODE 5.1 +360.5 360457 4.8 ELF3 PKNOX1 SIN3A RAD21 RARA ZNF335 FOS CREM CEBPB NR2F2 SDC2 CPQ GC08P096912 GC08P096734
GH08F096904 1.4 FANTOM5 Ensembl ENCODE 5 +413.0 412950 3.4 CTCF PKNOX1 JUN TAL1 ZFP64 SIN3A CEBPG RAD21 TEAD3 YY1 SDC2 CPQ GC08P096912 GC08P096734
GH08F096519 1.2 Ensembl ENCODE 5.2 +29.6 29574 6.6 PKNOX1 ARID4B RAD21 YY1 SCRT2 FOS CREM CEBPB TGIF2 SMARCA4 LOC102724804 SDC2 CPQ
GH08F096908 1.2 FANTOM5 Ensembl ENCODE 5 +416.0 416022 2.3 SMARCA4 BHLHE40 FOXP2 FOS ZBTB17 SDC2 CPQ GC08P096912 GC08P096734
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SDC2 on UCSC Golden Path with GeneCards custom track

Promoters for SDC2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001396886 1749 4201 PKNOX1 SIN3A ARID4B DMAP1 ZNF48 ZNF2 YY1 GLIS2 ZNF263 SP3

Genomic Location for SDC2 Gene

Chromosome:
8
Start:
96,493,351 bp from pter
End:
96,611,809 bp from pter
Size:
118,459 bases
Orientation:
Plus strand

Genomic View for SDC2 Gene

Genes around SDC2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SDC2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SDC2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SDC2 Gene

Proteins for SDC2 Gene

  • Protein details for SDC2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P34741-SDC2_HUMAN
    Recommended name:
    Syndecan-2
    Protein Accession:
    P34741
    Secondary Accessions:
    • B3KQA3
    • Q6PIS6
    • Q9H6V1

    Protein attributes for SDC2 Gene

    Size:
    201 amino acids
    Molecular mass:
    22160 Da
    Quaternary structure:
    • Interacts (via cytoplasmic domain) with SARM1 (By similarity). Forms a complex with SDCBP and PDCD6IP (PubMed:22660413).
    SequenceCaution:
    • Sequence=AAA52701.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

neXtProt entry for SDC2 Gene

Post-translational modifications for SDC2 Gene

  • O-glycosylated with core 1 or possibly core 8 glycans. Contains heparan sulfate.
  • Glycosylation at Ser 41, Ser 55, Ser 57, Ser 81, Thr 89, Thr 90, Thr 101, and Thr 107
  • Modification sites at PhosphoSitePlus

Other Protein References for SDC2 Gene

Antibody Products

  • R&D Systems Antibodies for SDC2 (Syndecan-2/CD362)

No data available for DME Specific Peptides for SDC2 Gene

Domains & Families for SDC2 Gene

Gene Families for SDC2 Gene

Suggested Antigen Peptide Sequences for SDC2 Gene

Graphical View of Domain Structure for InterPro Entry

P34741

UniProtKB/Swiss-Prot:

SDC2_HUMAN :
  • Belongs to the syndecan proteoglycan family.
Family:
  • Belongs to the syndecan proteoglycan family.
genes like me logo Genes that share domains with SDC2: view

Function for SDC2 Gene

Molecular function for SDC2 Gene

GENATLAS Biochemistry:
syndecan 2,heparan sulfate proteoglycan 1 (48kDa and 90kDa),cell surface-associated,lung,fibroblast,involved in a translocation t(X,8)(p22.13-q22.1) in a patient with autism and multiple exostoses
UniProtKB/Swiss-Prot Function:
Cell surface proteoglycan that bears heparan sulfate. Regulates dendritic arbor morphogenesis (By similarity).

Gene Ontology (GO) - Molecular Function for SDC2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 9660868
GO:0030165 PDZ domain binding IPI 18256285
genes like me logo Genes that share ontologies with SDC2: view
genes like me logo Genes that share phenotypes with SDC2: view

Animal Models for SDC2 Gene

MGI Knock Outs for SDC2:
  • Sdc2 tm1b(KOMP)Wtsi

Animal Model Products

  • Taconic Biosciences Mouse Models for SDC2

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for SDC2

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SDC2 Gene

Localization for SDC2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SDC2 Gene

Membrane; Single-pass type I 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 SDC2 gene
Compartment Confidence
plasma membrane 5
extracellular 4
lysosome 4
golgi apparatus 4
cytoskeleton 2
cytosol 2

Gene Ontology (GO) - Cellular Components for SDC2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005796 Golgi lumen TAS --
GO:0005886 plasma membrane TAS --
GO:0009986 cell surface IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SDC2: view

Pathways & Interactions for SDC2 Gene

genes like me logo Genes that share pathways with SDC2: view

Gene Ontology (GO) - Biological Process for SDC2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001523 retinoid metabolic process TAS --
GO:0006024 glycosaminoglycan biosynthetic process TAS --
GO:0006027 glycosaminoglycan catabolic process TAS --
GO:0007399 nervous system development IEA --
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with SDC2: view

No data available for SIGNOR curated interactions for SDC2 Gene

Drugs & Compounds for SDC2 Gene

(2) Drugs for SDC2 Gene - From: DrugBank and FDA Approved Drugs

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Sargramostim Approved, Investigational Pharma Target, agonist 0
Leukine Approved on November 24, 1995/ Approved November 1996 Pharma 0

(1) Additional Compounds for SDC2 Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
heparan sulfate
  • alpha-Idosane
  • Heparan N-sulfate
  • Heparan N-sulphate
  • Heparan sulfate
  • Heparan sulphate
9050-30-0
genes like me logo Genes that share compounds with SDC2: view

Transcripts for SDC2 Gene

Unigene Clusters for SDC2 Gene

Syndecan 2:
Representative Sequences:

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for SDC2

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SDC2 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b
SP1: -
SP2: - -
SP3:

Relevant External Links for SDC2 Gene

GeneLoc Exon Structure for
SDC2
ECgene alternative splicing isoforms for
SDC2

Expression for SDC2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SDC2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SDC2 Gene

This gene is overexpressed in Pancreas (18.3), Cerebral cortex (14.0), and Adrenal (8.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SDC2 Gene



NURSA nuclear receptor signaling pathways regulating expression of SDC2 Gene:

SDC2

SOURCE GeneReport for Unigene cluster for SDC2 Gene:

Hs.1501
genes like me logo Genes that share expression patterns with SDC2: view

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for SDC2 Gene

Orthologs for SDC2 Gene

This gene was present in the common ancestor of animals.

Orthologs for SDC2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SDC2 34 35
  • 99.5 (n)
cow
(Bos Taurus)
Mammalia SDC2 34 35
  • 91.87 (n)
oppossum
(Monodelphis domestica)
Mammalia SDC2 35
  • 86 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sdc2 34 16 35
  • 84.41 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SDC2 35
  • 83 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sdc2 34
  • 82.59 (n)
dog
(Canis familiaris)
Mammalia SDC2 34 35
  • 79.1 (n)
chicken
(Gallus gallus)
Aves SDC2 34
  • 74.63 (n)
lizard
(Anolis carolinensis)
Reptilia SDC2 35
  • 64 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sdc2 34
  • 66.12 (n)
Str.10701 34
African clawed frog
(Xenopus laevis)
Amphibia sdc2-A-prov 34
zebrafish
(Danio rerio)
Actinopterygii sdc2 34 35
  • 60.36 (n)
fruit fly
(Drosophila melanogaster)
Insecta Sdc 35
  • 13 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea sdn-1 35
  • 21 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3537 35
  • 27 (a)
OneToMany
Species where no ortholog for SDC2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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 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)

Evolution for SDC2 Gene

ENSEMBL:
Gene Tree for SDC2 (if available)
TreeFam:
Gene Tree for SDC2 (if available)

Paralogs for SDC2 Gene

Paralogs for SDC2 Gene

(2) SIMAP similar genes for SDC2 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with SDC2: view

Variants for SDC2 Gene

Sequence variations from dbSNP and Humsavar for SDC2 Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type
rs10089092 -- 96,565,509(+) GGTTT(G/T)GGATA intron-variant
rs10093084 -- 96,545,590(+) GAGGG(C/T)AAGGA intron-variant
rs10094437 -- 96,533,246(+) agcag(A/G)ttccc intron-variant
rs10096276 -- 96,515,892(+) GGAAA(A/G)TACTG intron-variant
rs10097232 -- 96,563,671(+) CTTCT(A/G)AACAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SDC2 Gene

Variant ID Type Subtype PubMed ID
esv3117789 CNV deletion 24192839
esv3543892 CNV deletion 23714750
esv3576596 CNV gain 25503493
esv3618123 CNV loss 21293372
esv7356 CNV loss 19470904
nsv396800 CNV insertion 16902084
nsv507475 OTHER sequence alteration 20534489
nsv519431 CNV gain 19592680
nsv6322 CNV deletion 18451855
nsv819080 CNV gain 19587683
nsv821376 CNV deletion 20802225
nsv824691 CNV gain 20364138
nsv824692 CNV gain 20364138
nsv824693 CNV loss 20364138
nsv831404 CNV gain 17160897
nsv958519 CNV deletion 24416366
esv27431 CNV gain+loss 19812545
esv2737336 CNV deletion 23290073
esv2737335 CNV deletion 23290073
esv2737334 CNV deletion 23290073
esv2667295 CNV deletion 23128226
esv2661416 CNV deletion 23128226
esv2537308 CNV insertion 19546169
esv1386401 CNV insertion 17803354
esv1008392 CNV deletion 20482838
dgv470e215 CNV deletion 23714750
dgv1298e199 CNV deletion 23128226
dgv12247n54 CNV loss 21841781
dgv12246n54 CNV loss 21841781
dgv12245n54 CNV loss 21841781
dgv12244n54 CNV loss 21841781
dgv12243n54 CNV loss 21841781

Variation tolerance for SDC2 Gene

Residual Variation Intolerance Score: 62.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 10.79; 91.67% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SDC2 Gene

Human Gene Mutation Database (HGMD)
SDC2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SDC2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SDC2 Gene

Disorders for SDC2 Gene

MalaCards: The human disease database

(2) MalaCards diseases for SDC2 Gene - From: DISEASES

Disorder Aliases PubMed IDs
trichorhinophalangeal syndrome, type i
  • trichorhinophalangeal syndrome, type iii
chronic cholangitis
- elite association - COSMIC cancer census association via MalaCards
Search SDC2 in MalaCards View complete list of genes associated with diseases

Relevant External Links for SDC2

Genetic Association Database (GAD)
SDC2
Human Genome Epidemiology (HuGE) Navigator
SDC2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SDC2
genes like me logo Genes that share disorders with SDC2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SDC2 Gene

Publications for SDC2 Gene

  1. Syndecan-syntenin-ALIX regulates the biogenesis of exosomes. (PMID: 22660413) Baietti M.F. … David G. (Nat. Cell Biol. 2012) 3 4 64
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  3. Common polymorphisms in ITGA2, PON1 and THBS2 are associated with coronary atherosclerosis in a candidate gene association study of the Chinese Han population. (PMID: 20485444) Wang Y. … Huang W. (J. Hum. Genet. 2010) 3 46 64
  4. 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 S.D. … Anand S. (Diabetes Care 2010) 3 46 64
  5. Genomic screening identifies novel linkages and provides further evidence for a role of MYH9 in nonsyndromic cleft lip and palate. (PMID: 18716610) Chiquet B.T. … Hecht J.T. (Eur. J. Hum. Genet. 2009) 3 46 64

Products for SDC2 Gene

Sources for SDC2 Gene

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