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Aliases for MATN3 Gene

Aliases for MATN3 Gene

  • Matrilin 3 2 3 5
  • DIPOA 3
  • OADIP 3
  • EDM5 3
  • HOA 3
  • OS2 3

External Ids for MATN3 Gene

Previous GeneCards Identifiers for MATN3 Gene

  • GC02M020083
  • GC02M020259
  • GC02M020176
  • GC02M020113
  • GC02M019949
  • GC02M020191

Summaries for MATN3 Gene

Entrez Gene Summary for MATN3 Gene

  • This gene encodes a member of von Willebrand factor A domain containing protein family. This family of proteins is thought to be involved in the formation of filamentous networks in the extracellular matrices of various tissues. This protein contains two von Willebrand factor A domains; it is present in the cartilage extracellular matrix and has a role in the development and homeostasis of cartilage and bone. Mutations in this gene result in multiple epiphyseal dysplasia. [provided by RefSeq, Jul 2008]

GeneCards Summary for MATN3 Gene

MATN3 (Matrilin 3) is a Protein Coding gene. Diseases associated with MATN3 include Epiphyseal Dysplasia, Multiple, 5 and Spondyloepimetaphyseal Dysplasia. Among its related pathways are Degradation of the extracellular matrix and ECM proteoglycans. GO annotations related to this gene include calcium ion binding and extracellular matrix structural constituent. An important paralog of this gene is MATN1.

UniProtKB/Swiss-Prot for MATN3 Gene

  • Major component of the extracellular matrix of cartilage and may play a role in the formation of extracellular filamentous networks.

Gene Wiki entry for MATN3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MATN3 Gene

Genomics for MATN3 Gene

Regulatory Elements for MATN3 Gene

Enhancers for MATN3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around MATN3 on UCSC Golden Path with GeneCards custom track

Promoters for MATN3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around MATN3 on UCSC Golden Path with GeneCards custom track

Genomic Location for MATN3 Gene

19,992,052 bp from pter
20,012,694 bp from pter
20,643 bases
Minus strand

Genomic View for MATN3 Gene

Genes around MATN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MATN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MATN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MATN3 Gene

Proteins for MATN3 Gene

  • Protein details for MATN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B2CPU0
    • Q4ZG02

    Protein attributes for MATN3 Gene

    486 amino acids
    Molecular mass:
    52817 Da
    Quaternary structure:
    • Can form homooligomers (monomers, dimers, trimers and tetramers) and heterooligomers with matrilin-1 (By similarity). Interacts with COMP.

    Alternative splice isoforms for MATN3 Gene


neXtProt entry for MATN3 Gene

Proteomics data for MATN3 Gene at MOPED

Post-translational modifications for MATN3 Gene

  • Glycosylation at Ser 53 and Thr 65
  • Modification sites at PhosphoSitePlus

Other Protein References for MATN3 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for MATN3 Gene

Domains & Families for MATN3 Gene

Suggested Antigen Peptide Sequences for MATN3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Contains 4 EGF-like domains.
  • Contains 4 EGF-like domains.
  • Contains 1 VWFA domain.
genes like me logo Genes that share domains with MATN3: view

No data available for Gene Families for MATN3 Gene

Function for MATN3 Gene

Molecular function for MATN3 Gene

GENATLAS Biochemistry:
matrilin 3,involved in the differentiation state of chondrocytes
UniProtKB/Swiss-Prot Function:
Major component of the extracellular matrix of cartilage and may play a role in the formation of extracellular filamentous networks.

Gene Ontology (GO) - Molecular Function for MATN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with MATN3: view
genes like me logo Genes that share phenotypes with MATN3: view

Human Phenotype Ontology for MATN3 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for MATN3 Gene

MGI Knock Outs for MATN3:

Animal Model Products

miRNA for MATN3 Gene

miRTarBase miRNAs that target MATN3

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for MATN3 Gene

Localization for MATN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for MATN3 Gene


Subcellular locations from

Jensen Localization Image for MATN3 Gene COMPARTMENTS Subcellular localization image for MATN3 gene
Compartment Confidence
extracellular 5
endoplasmic reticulum 2
lysosome 1
nucleus 1
peroxisome 1
plasma membrane 1
vacuole 1

No data available for Gene Ontology (GO) - Cellular Components for MATN3 Gene

Pathways & Interactions for MATN3 Gene

genes like me logo Genes that share pathways with MATN3: view

Pathways by source for MATN3 Gene

2 Reactome pathways for MATN3 Gene

Gene Ontology (GO) - Biological Process for MATN3 Gene


No data available for SIGNOR curated interactions for MATN3 Gene

Drugs & Compounds for MATN3 Gene

(1) Drugs for MATN3 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with MATN3: view

Transcripts for MATN3 Gene

mRNA/cDNA for MATN3 Gene

Unigene Clusters for MATN3 Gene

Matrilin 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for MATN3 Gene

No ASD Table

Relevant External Links for MATN3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for MATN3 Gene

mRNA expression in normal human tissues for MATN3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for MATN3 Gene

This gene is overexpressed in Nerve - Tibial (x5.0).

Protein differential expression in normal tissues from HIPED for MATN3 Gene

This gene is overexpressed in Liver (41.1) and Breast (27.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for MATN3 Gene

SOURCE GeneReport for Unigene cluster for MATN3 Gene Hs.656199

mRNA Expression by UniProt/SwissProt for MATN3 Gene

Tissue specificity: Expressed only in cartilaginous tissues, such as vertebrae, ribs and shoulders.
genes like me logo Genes that share expression patterns with MATN3: view

Protein tissue co-expression partners for MATN3 Gene

Primer Products

Orthologs for MATN3 Gene

This gene was present in the common ancestor of animals.

Orthologs for MATN3 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia MATN3 35
  • 86.07 (n)
  • 90.38 (a)
MATN3 36
  • 88 (a)
(Canis familiaris)
Mammalia MATN3 35
  • 86.56 (n)
  • 87.22 (a)
MATN3 36
  • 85 (a)
(Mus musculus)
Mammalia Matn3 35
  • 83.52 (n)
  • 83.96 (a)
Matn3 16
Matn3 36
  • 84 (a)
(Pan troglodytes)
Mammalia MATN3 35
  • 99.11 (n)
  • 98.56 (a)
MATN3 36
  • 99 (a)
(Rattus norvegicus)
Mammalia Matn3 35
  • 82.26 (n)
  • 84.63 (a)
(Gallus gallus)
Aves MATN3 35
  • 65.52 (n)
  • 63.73 (a)
MATN3 36
  • 58 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia matn3 35
  • 65.31 (n)
  • 63.64 (a)
(Danio rerio)
Actinopterygii matn3a 36
  • 50 (a)
matn3b 36
  • 39 (a)
(Caenorhabditis elegans)
Secernentea mup-4 36
  • 7 (a)
Species with no ortholog for MATN3:
  • 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)
  • lizard (Anolis carolinensis)
  • 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)

Evolution for MATN3 Gene

Gene Tree for MATN3 (if available)
Gene Tree for MATN3 (if available)

Paralogs for MATN3 Gene

(4) SIMAP similar genes for MATN3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with MATN3: view

Variants for MATN3 Gene

Sequence variations from dbSNP and Humsavar for MATN3 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
VAR_013691 Multiple epiphyseal dysplasia 5 (EDM5)
VAR_013692 Multiple epiphyseal dysplasia 5 (EDM5)
VAR_015852 -
VAR_019881 -
VAR_019882 Multiple epiphyseal dysplasia 5 (EDM5)

Structural Variations from Database of Genomic Variants (DGV) for MATN3 Gene

Variant ID Type Subtype PubMed ID
esv29979 CNV Loss 17803354

Variation tolerance for MATN3 Gene

Residual Variation Intolerance Score: 84.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.93; 59.58% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for MATN3 Gene

Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for MATN3 Gene

Disorders for MATN3 Gene

MalaCards: The human disease database

(11) MalaCards diseases for MATN3 Gene - From: OMIM, ClinVar, GeneTests, Orphanet, Swiss-Prot, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
epiphyseal dysplasia, multiple, 5
  • multiple epiphyseal dysplasia 5
spondyloepimetaphyseal dysplasia
  • spondyloepimetaphyseal dysplasia matrilin-3 related
multiple epiphyseal dysplasia, dominant
multiple epiphyseal dysplasia
  • epiphyseal dysplasia, multiple, 2
  • pseudoachondroplastic dysplasia
- elite association - COSMIC cancer census association via MalaCards
Search MATN3 in MalaCards View complete list of genes associated with diseases


  • Multiple epiphyseal dysplasia 5 (EDM5) [MIM:607078]: A generalized skeletal dysplasia associated with significant morbidity. Joint pain, joint deformity, waddling gait, and short stature are the main clinical signs and symptoms. Radiological examination of the skeleton shows delayed, irregular mineralization of the epiphyseal ossification centers and of the centers of the carpal and tarsal bones. Multiple epiphyseal dysplasia is broadly categorized into the more severe Fairbank and the milder Ribbing types. The Fairbank type is characterized by shortness of stature, short and stubby fingers, small epiphyses in several joints, including the knee, ankle, hand, and hip. The Ribbing type is confined predominantly to the hip joints and is characterized by hands that are normal and stature that is normal or near-normal. Multiple epiphyseal dysplasia type 5 is relatively mild and clinically variable. It is primarily characterized by delayed and irregular ossification of the epiphyses and early-onset osteoarthritis. {ECO:0000269 PubMed:11479597, ECO:0000269 PubMed:12884427, ECO:0000269 PubMed:14729835, ECO:0000269 PubMed:15459972, ECO:0000269 PubMed:15948199, ECO:0000269 PubMed:16287128, ECO:0000269 PubMed:21922596}. Note=The disease is caused by mutations affecting the gene represented in this entry.
  • Osteoarthritis 2 (OS2) [MIM:140600]: A degenerative disease of the joints characterized by degradation of the hyaline articular cartilage and remodeling of the subchondral bone with sclerosis. Clinical symptoms include pain and joint stiffness often leading to significant disability and joint replacement. In the hand, osteoarthritis can develop in the distal interphalangeal and the first carpometacarpal (base of thumb) and proximal interphalangeal joints. Patients with osteoarthritis may have one, a few, or all of these sites affected. {ECO:0000269 PubMed:12736871}. Note=Disease susceptibility is associated with variations affecting the gene represented in this entry.
  • Spondyloepimetaphyseal dysplasia MATN3-related (SEMD-MATN3) [MIM:608728]: A bone disease characterized by disproportionate early-onset dwarfism, bowing of the lower limbs, lumbar lordosis and normal hands. Skeletal abnormalities include short, wide and stocky long bones with severe epiphyseal and metaphyseal changes, hypoplastic iliac bones and flat, ovoid vertebral bodies. {ECO:0000269 PubMed:15121775}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for MATN3

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with MATN3: view

No data available for Genatlas for MATN3 Gene

Publications for MATN3 Gene

  1. Mutations in the region encoding the von Willebrand factor A domain of matrilin-3 are associated with multiple epiphyseal dysplasia. (PMID: 11479597) Chapman K.L. … Briggs M.D. (Nat. Genet. 2001) 3 4 23 48 67
  2. Primary structure of matrilin-3, a new member of a family of extracellular matrix proteins related to cartilage matrix protein (matrilin-1) and von Willebrand factor. (PMID: 9287130) Wagener R. … Paulsson M. (FEBS Lett. 1997) 2 3 23
  3. A matrilin-3 mutation associated with osteoarthritis does not affect collagen affinity but promotes the formation of wider cartilage collagen fibrils. (PMID: 20077500) Otten C. … Zaucke F. (Hum. Mutat. 2010) 3 23
  4. Matrilin-3 activates the expression of osteoarthritis-associated genes in primary human chondrocytes. (PMID: 19840795) Klatt A.R. … Wielckens K. (FEBS Lett. 2009) 3 23
  5. Novel mutations in exon 2 of MATN3 affect residues within the alpha-helices of the A-domain and can result in the intracellular retention of mutant matrilin-3. (PMID: 18205203) Fresquet M. … Briggs M.D. (Hum. Mutat. 2008) 3 23

Products for MATN3 Gene

Sources for MATN3 Gene