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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 Neurofibromatosis, Type I and Trichorhinophalangeal Syndrome, Type I. Among its related pathways are Cell adhesion_ECM remodeling and Chondroitin sulfate/dermatan sulfate metabolism. Gene Ontology (GO) annotations related to this gene include PDZ domain binding and cytoskeletal protein binding. An important paralog of this gene is SDC3.

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

Additional gene information for SDC2 Gene

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

Genomics for SDC2 Gene

GeneHancer (GH) Regulatory Elements for SDC2 Gene

Promoters and enhancers for SDC2 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH08J096492 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 650.7 +2.0 1955 4.8 PKNOX1 FOXA2 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 ZNF263 SP3 SDC2 CPQ
GH08J096904 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 5 +412.9 412906 3.1 FOXA2 TAL1 MAX CEBPG RAD21 YY1 TCF12 POLR2A HNF4G CBFA2T2 SDC2 CPQ GC08P096912 GC08P096734
GH08J096851 Enhancer 1.2 FANTOM5 Ensembl ENCODE 5.1 +360.2 360157 4.2 ELF3 FOXA2 RAD21 RARA RCOR1 FOS CREM CEBPB KAT8 SP1 SDC2 CPQ GC08P096912 GC08P096734
GH08J096861 Enhancer 1.1 FANTOM5 Ensembl ENCODE 5.1 +368.3 368349 1 SCRT1 MEF2B DPF2 RAD21 SP1 SCRT2 IKZF1 CREB1 IKZF2 SPI1 SDC2 CPQ GC08P096912 GC08P096734
GH08J096908 Enhancer 1.1 FANTOM5 Ensembl ENCODE dbSUPER 5 +416.0 416021 2.3 FOXP2 FOS SDC2 CPQ GC08P096912 GC08P096734
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SDC2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SDC2 gene promoter:
  • Arnt
  • AhR
  • MRF-2
  • LCR-F1
  • E4BP4
  • Nkx2-5
  • Evi-1
  • Bach1
  • NRSF form 1

Genomic Locations for SDC2 Gene

Genomic Locations for SDC2 Gene
118,459 bases
Plus strand
118,459 bases
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:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B3KQA3
    • Q6PIS6
    • Q9H6V1

    Protein attributes for SDC2 Gene

    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).
    • 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 isoforms=107, posLast=101101, isoforms=90, posLast=8989, posLast=8181, posLast=5757, isoforms=55, and posLast=4141
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • SDC2_HUMAN (707)

Protein Products

No data available for DME Specific Peptides for SDC2 Gene

Domains & Families for SDC2 Gene

Gene Families for SDC2 Gene

Human Protein Atlas (HPA):
  • CD markers
  • Predicted membrane proteins

Suggested Antigen Peptide Sequences for SDC2 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the syndecan proteoglycan 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

UniProtKB/Swiss-Prot Function:
Cell surface proteoglycan that bears heparan sulfate. Regulates dendritic arbor morphogenesis (By similarity).
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

Phenotypes From GWAS Catalog for SDC2 Gene

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
GO:0042802 identical protein binding IPI 18093920
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 Sdc2<tm1b(KOMP)Wtsi>

Animal Model Products

  • Taconic Biosciences Mouse Models for SDC2

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SDC2

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

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 5
endoplasmic reticulum 4
lysosome 4
golgi apparatus 4
cytoskeleton 2
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SDC2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005788 endoplasmic reticulum lumen TAS --
GO:0005796 Golgi lumen TAS --
GO:0005886 plasma membrane TAS --
GO:0009986 cell surface IBA --
GO:0016020 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
  • Heparan sulfuric acid
  • Heparan sulphate
  • Heparan sulphuric acid
  • alpha-Idosane
  • Heparan N-sulfate
genes like me logo Genes that share compounds with SDC2: view

Transcripts for SDC2 Gene

mRNA/cDNA for SDC2 Gene

Unigene Clusters for SDC2 Gene

Syndecan 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SDC2

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

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

Relevant External Links for SDC2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SDC2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP 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, MaxQB, and MOPED for SDC2 Gene

NURSA nuclear receptor signaling pathways regulating expression of SDC2 Gene:


SOURCE GeneReport for Unigene cluster for SDC2 Gene:


Evidence on tissue expression from TISSUES for SDC2 Gene

  • Nervous system(4.9)
  • Liver(4.6)
  • Lung(4.5)
  • Muscle(4.5)
  • Kidney(2.5)
  • Thyroid gland(2.5)
  • Heart(2.4)
  • Intestine(2.4)
  • Bone(2.3)
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 , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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
(Pan troglodytes)
Mammalia SDC2 34 33
  • 99.5 (n)
(Bos Taurus)
Mammalia SDC2 34 33
  • 91.87 (n)
(Monodelphis domestica)
Mammalia SDC2 34
  • 86 (a)
(Mus musculus)
Mammalia Sdc2 16 34 33
  • 84.41 (n)
(Ornithorhynchus anatinus)
Mammalia SDC2 34
  • 83 (a)
(Rattus norvegicus)
Mammalia Sdc2 33
  • 82.59 (n)
(Canis familiaris)
Mammalia SDC2 34 33
  • 79.1 (n)
(Gallus gallus)
Aves SDC2 33
  • 74.63 (n)
(Anolis carolinensis)
Reptilia SDC2 34
  • 64 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia sdc2 33
  • 66.12 (n)
Str.10701 33
African clawed frog
(Xenopus laevis)
Amphibia sdc2-A-prov 33
(Danio rerio)
Actinopterygii sdc2 34 33 33
  • 60.36 (n)
fruit fly
(Drosophila melanogaster)
Insecta Sdc 34
  • 13 (a)
(Caenorhabditis elegans)
Secernentea sdn-1 34
  • 21 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3537 34
  • 27 (a)
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

Gene Tree for SDC2 (if available)
Gene Tree for SDC2 (if available)
Evolutionary constrained regions (ECRs) for SDC2: view image

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 Variation AA Info Type
rs1000009555 -- 96,550,168(+) T/C genic_upstream_transcript_variant, intron_variant
rs1000011844 -- 96,566,716(+) T/A genic_upstream_transcript_variant, intron_variant
rs1000061744 -- 96,603,907(+) A/G/T intron_variant
rs1000065250 -- 96,598,023(+) T/G intron_variant
rs1000073990 -- 96,565,988(+) C/T genic_upstream_transcript_variant, intron_variant

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

Variant ID Type Subtype PubMed ID
dgv12243n54 CNV loss 21841781
dgv12244n54 CNV loss 21841781
dgv12245n54 CNV loss 21841781
dgv12246n54 CNV loss 21841781
dgv12247n54 CNV loss 21841781
dgv1298e199 CNV deletion 23128226
dgv470e215 CNV deletion 23714750
esv1008392 CNV deletion 20482838
esv1386401 CNV insertion 17803354
esv2537308 CNV insertion 19546169
esv2661416 CNV deletion 23128226
esv2667295 CNV deletion 23128226
esv2737334 CNV deletion 23290073
esv2737335 CNV deletion 23290073
esv2737336 CNV deletion 23290073
esv27431 CNV gain+loss 19812545
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

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)

Additional Variant Information for SDC2 Gene

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

SNP Genotyping and Copy Number Assay Products

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

Disorders for SDC2 Gene

MalaCards: The human disease database

(4) MalaCards diseases for SDC2 Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
neurofibromatosis, type i
  • nf1
trichorhinophalangeal syndrome, type i
  • trps1
chronic cholangitis
  • autistic disorder
- elite association - COSMIC cancer census association via MalaCards
Search SDC2 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for SDC2

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
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 MF … David G (Nature cell biology 2012) 3 4 58
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  3. 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
  4. 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 (Journal of human genetics 2010) 3 44 58
  5. Identification of new putative susceptibility genes for several psychiatric disorders by association analysis of regulatory and non-synonymous SNPs of 306 genes involved in neurotransmission and neurodevelopment. (PMID: 19086053) Gratacòs M … Psychiatric Genetics Network Group (American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics 2009) 3 44 58

Products for SDC2 Gene

Sources for SDC2 Gene

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