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Aliases for COL5A3 Gene

Aliases for COL5A3 Gene

  • Collagen Type V Alpha 3 Chain 2 3 5
  • Collagen Alpha-3(V) Chain 3 4
  • Collagen, Type V, Alpha 3 3
  • Pro-(Alpha)3(V) Collagen 3
  • Collagen Type V Alpha 3 2

External Ids for COL5A3 Gene

Previous GeneCards Identifiers for COL5A3 Gene

  • GC19M010191
  • GC19M010293
  • GC19M009916
  • GC19M010071
  • GC19M009650

Summaries for COL5A3 Gene

Entrez Gene Summary for COL5A3 Gene

  • This gene encodes an alpha chain for one of the low abundance fibrillar collagens. Fibrillar collagen molecules are trimers that can be composed of one or more types of alpha chains. Type V collagen is found in tissues containing type I collagen and appears to regulate the assembly of heterotypic fibers composed of both type I and type V collagen. This gene product is closely related to type XI collagen and it is possible that the collagen chains of types V and XI constitute a single collagen type with tissue-specific chain combinations. Mutations in this gene are thought to be responsible for the symptoms of a subset of patients with Ehlers-Danlos syndrome type III. Messages of several sizes can be detected in northern blots but sequence information cannot confirm the identity of the shorter messages. [provided by RefSeq, Jul 2008]

GeneCards Summary for COL5A3 Gene

COL5A3 (Collagen Type V Alpha 3 Chain) is a Protein Coding gene. Among its related pathways are Integrin Pathway and Collagen chain trimerization. Gene Ontology (GO) annotations related to this gene include heparin binding and extracellular matrix structural constituent. An important paralog of this gene is COL24A1.

UniProtKB/Swiss-Prot for COL5A3 Gene

  • Type V collagen is a member of group I collagen (fibrillar forming collagen). It is a minor connective tissue component of nearly ubiquitous distribution. Type V collagen binds to DNA, heparan sulfate, thrombospondin, heparin, and insulin.

Gene Wiki entry for COL5A3 Gene

Additional gene information for COL5A3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for COL5A3 Gene

Genomics for COL5A3 Gene

GeneHancer (GH) Regulatory Elements for COL5A3 Gene

Promoters and enhancers for COL5A3 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
GH19J010005 Promoter/Enhancer 2.1 EPDnew FANTOM5 Ensembl ENCODE 638.5 +2.1 2137 5.2 ZNF473 ZNF148 ZNF121 ZBTB7A SP7 PRDM1 IKZF1 CREB1 GLIS2 PKNOX1 COL5A3 LOC100419831 ZNF559 ZNF177 ILF3 KRI1 DNMT1 ZNF121 ZNF846 ZNF317
GH19J010235 Promoter/Enhancer 2 EPDnew FANTOM5 ENCODE dbSUPER 9.7 -226.8 -226810 4.4 SP1 ELF3 ZNF148 NKRF CEBPG RERE GTF2F1 ZNF687 AHR TFE3 MRPL4 S1PR5 RDH8 COL5A3 S1PR2 ATG4D SHFL TYK2 DNM2 FBXL12
GH19J009913 Promoter/Enhancer 1.7 FANTOM5 Ensembl ENCODE 11.2 +96.6 96611 2.7 ZFX ZNF148 ZNF384 MAFK NCOA6 ZBTB7A TRIM24 KLF14 EGR1 ZNF560 OLFM2 COL5A3 RDH8 ENSG00000267273 ZNF266 GC19P009927 PIR54152
GH19J009986 Enhancer 0.5 Ensembl ENCODE 23.9 +23.5 23509 1 NR2F2 COL5A3 RDH8 OLFM2 SHFL ENSG00000267650
GH19J010198 Promoter/Enhancer 1.2 Ensembl ENCODE 10.4 -189.6 -189569 3.4 ZNF384 IKZF1 NR2C1 ZNF316 EGR1 RUNX3 GATAD2A NR2C2 CEBPG CEBPB SHFL ANGPTL6 S1PR2 MRPL4 ICAM1 EIF3G P2RY11 PPAN PPAN-P2RY11 SNORD105B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around COL5A3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the COL5A3 gene promoter:
  • AML1a
  • ATF
  • Bach1
  • Bach2
  • HEN1
  • NRSF form 1
  • NRSF form 2
  • Sp1

Genomic Locations for COL5A3 Gene

Genomic Locations for COL5A3 Gene
50,978 bases
Minus strand
50,911 bases
Minus strand

Genomic View for COL5A3 Gene

Genes around COL5A3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
COL5A3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for COL5A3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for COL5A3 Gene

Proteins for COL5A3 Gene

  • Protein details for COL5A3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Collagen alpha-3(V) chain
    Protein Accession:
    Secondary Accessions:
    • Q9NZQ6

    Protein attributes for COL5A3 Gene

    1745 amino acids
    Molecular mass:
    172121 Da
    Quaternary structure:
    • Trimers of two alpha 1(V) and one alpha 2(V) chains in most tissues and trimers of one alpha 1(V), one alpha 2(V), and one alpha 3(V) chains in placenta.

neXtProt entry for COL5A3 Gene

Post-translational modifications for COL5A3 Gene

  • Prolines at the third position of the tripeptide repeating unit (G-X-Y) are hydroxylated in some or all of the chains.
  • Glycosylation at posLast=141141 and isoforms=102
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • CO5A3_HUMAN (1138)

Other Protein References for COL5A3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for COL5A3 Gene

Domains & Families for COL5A3 Gene

Gene Families for COL5A3 Gene

Human Protein Atlas (HPA):
  • Cancer-related genes
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for COL5A3 Gene

GenScript: Design optimal peptide antigens:
  • Collagen alpha-3(V) chain (CO5A3_HUMAN)

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the fibrillar collagen family.
  • Belongs to the fibrillar collagen family.
genes like me logo Genes that share domains with COL5A3: view

Function for COL5A3 Gene

Molecular function for COL5A3 Gene

UniProtKB/Swiss-Prot Function:
Type V collagen is a member of group I collagen (fibrillar forming collagen). It is a minor connective tissue component of nearly ubiquitous distribution. Type V collagen binds to DNA, heparan sulfate, thrombospondin, heparin, and insulin.

Phenotypes From GWAS Catalog for COL5A3 Gene

Gene Ontology (GO) - Molecular Function for COL5A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005201 extracellular matrix structural constituent NAS 10722718
GO:0005518 collagen binding NAS 10722718
GO:0008201 heparin binding IEA,IBA 21873635
GO:0030020 extracellular matrix structural constituent conferring tensile strength RCA 27559042
GO:0043394 proteoglycan binding IEA --
genes like me logo Genes that share ontologies with COL5A3: view
genes like me logo Genes that share phenotypes with COL5A3: view

Animal Models for COL5A3 Gene

MGI Knock Outs for COL5A3:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for COL5A3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for COL5A3 Gene

Localization for COL5A3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for COL5A3 Gene

Secreted, extracellular space, extracellular matrix.

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 COL5A3 gene
Compartment Confidence
extracellular 4
endoplasmic reticulum 4
plasma membrane 3
lysosome 1
golgi apparatus 0

Gene Ontology (GO) - Cellular Components for COL5A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005581 collagen trimer IEA --
GO:0005588 collagen type V trimer IEA,NAS 1571108
GO:0005615 extracellular space IBA 21873635
GO:0005788 endoplasmic reticulum lumen TAS --
genes like me logo Genes that share ontologies with COL5A3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for COL5A3 Gene

Pathways & Interactions for COL5A3 Gene

genes like me logo Genes that share pathways with COL5A3: view

Gene Ontology (GO) - Biological Process for COL5A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion IBA 21873635
GO:0007160 cell-matrix adhesion IEA --
GO:0030198 extracellular matrix organization TAS --
GO:0030199 collagen fibril organization NAS 10722718
GO:0043588 skin development NAS 10722718
genes like me logo Genes that share ontologies with COL5A3: view

No data available for SIGNOR curated interactions for COL5A3 Gene

Drugs & Compounds for COL5A3 Gene

No Compound Related Data Available

Transcripts for COL5A3 Gene

mRNA/cDNA for COL5A3 Gene

(1) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(72) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Unigene Clusters for COL5A3 Gene

Collagen, type V, alpha 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for COL5A3

Alternative Splicing Database (ASD) splice patterns (SP) for COL5A3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^ 25 ^ 26 ^

ExUns: 27 ^ 28 ^ 29 ^ 30 ^ 31 ^ 32 ^ 33 ^ 34 ^ 35 ^ 36 ^ 37 ^ 38 ^ 39 ^ 40 ^ 41 ^ 42 ^ 43 ^ 44 ^ 45 ^ 46 ^ 47 ^ 48 ^ 49 ^ 50 ^ 51 ^ 52 ^

ExUns: 53 ^ 54 ^ 55 ^ 56 ^ 57 ^ 58a · 58b ^ 59 ^ 60 ^ 61a · 61b ^ 62 ^ 63 ^ 64 ^ 65 ^ 66 ^ 67
SP1: - -

Relevant External Links for COL5A3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for COL5A3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for COL5A3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for COL5A3 Gene

This gene is overexpressed in Brain (18.0), Adipocyte (16.1), Lung (8.9), and Bone marrow mesenchymal stem cell (6.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for COL5A3 Gene

NURSA nuclear receptor signaling pathways regulating expression of COL5A3 Gene:


SOURCE GeneReport for Unigene cluster for COL5A3 Gene:


Evidence on tissue expression from TISSUES for COL5A3 Gene

  • Heart(4.1)
  • Liver(4.1)
genes like me logo Genes that share expression patterns with COL5A3: 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 COL5A3 Gene

Orthologs for COL5A3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for COL5A3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia COL5A3 35 34
  • 95.98 (n)
(Canis familiaris)
Mammalia COL5A3 35 34
  • 87.98 (n)
(Bos Taurus)
Mammalia COL5A3 35 34
  • 85.97 (n)
(Mus musculus)
Mammalia Col5a3 17 35 34
  • 80.77 (n)
(Rattus norvegicus)
Mammalia Col5a3 34
  • 80.74 (n)
(Monodelphis domestica)
Mammalia COL5A3 35
  • 73 (a)
(Ornithorhynchus anatinus)
Mammalia COL5A3 35
  • 61 (a)
(Anolis carolinensis)
Reptilia COL5A3 35
  • 71 (a)
(Danio rerio)
Actinopterygii col5a3a 35
  • 60 (a)
col5a3b 35
  • 56 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 55 (a)
Species where no ortholog for COL5A3 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)
  • chicken (Gallus gallus)
  • 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 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for COL5A3 Gene

Gene Tree for COL5A3 (if available)
Gene Tree for COL5A3 (if available)
Evolutionary constrained regions (ECRs) for COL5A3: view image

Paralogs for COL5A3 Gene

Variants for COL5A3 Gene

Sequence variations from dbSNP and Humsavar for COL5A3 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs864309605 uncertain-significance, not specified 9,989,353(-) T/C coding_sequence_variant, genic_upstream_transcript_variant, missense_variant, upstream_transcript_variant
rs1000049048 -- 9,987,860(-) G/A intron_variant
rs1000146469 -- 9,971,975(-) C/T intron_variant
rs1000227999 -- 9,997,305(-) C/T genic_upstream_transcript_variant, intron_variant
rs1000488822 -- 9,998,712(-) T/G genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for COL5A3 Gene

Variant ID Type Subtype PubMed ID
esv1171542 CNV insertion 17803354
esv1205344 CNV deletion 17803354
esv1756302 CNV deletion 17803354
esv2406867 CNV deletion 18987734
esv2659051 CNV deletion 23128226
esv2667691 CNV deletion 23128226
esv2718163 CNV deletion 23290073
esv2718164 CNV deletion 23290073
esv2718165 CNV deletion 23290073
esv2718166 CNV deletion 23290073
esv2718167 CNV deletion 23290073
esv3404998 CNV insertion 20981092
esv3449361 CNV duplication 20981092
esv3643646 CNV loss 21293372
nsv1059984 CNV gain 25217958
nsv1072321 CNV deletion 25765185
nsv1131398 CNV deletion 24896259
nsv520683 CNV loss 19592680
nsv833742 CNV loss 17160897

Variation tolerance for COL5A3 Gene

Residual Variation Intolerance Score: 66.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 27.12; 99.81% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for COL5A3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for COL5A3 Gene

Disorders for COL5A3 Gene

Additional Disease Information for COL5A3

No disorders were found for COL5A3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for COL5A3 Gene

Publications for COL5A3 Gene

  1. The pro-alpha3(V) collagen chain. Complete primary structure, expression domains in adult and developing tissues, and comparison to the structures and expression domains of the other types V and XI procollagen chains. (PMID: 10722718) Imamura Y … Greenspan DS (The Journal of biological chemistry 2000) 2 3 4 58
  2. Type V Collagen in Health, Disease, and Fibrosis. (PMID: 26910848) Mak KM … Lee DJ (Anatomical record (Hoboken, N.J. : 2007) 2016) 2 3 58
  3. Isolation of the alpha 3-chain of human type V collagen and characterization by partial sequencing. (PMID: 1571108) Mann K (Biological chemistry Hoppe-Seyler 1992) 3 4 58
  4. Loss of ER retention motif of AGR2 can impact mTORC signaling and promote cancer metastasis. (PMID: 30575818) Tiemann K … Kani K (Oncogene 2019) 3 58
  5. Proteomic characterization of human multiple myeloma bone marrow extracellular matrix. (PMID: 28344315) Glavey SV … Ghobrial IM (Leukemia 2017) 3 58

Products for COL5A3 Gene

Sources for COL5A3 Gene

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