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Aliases for COL13A1 Gene

Aliases for COL13A1 Gene

  • Collagen, Type XIII, Alpha 1 2 3
  • COLXIIIA1 3 4
  • Collagen Alpha-1(XIII) Chain 3

External Ids for COL13A1 Gene

Previous GeneCards Identifiers for COL13A1 Gene

  • GC10P070372
  • GC10P070648
  • GC10P071454
  • GC10P070906
  • GC10P071231
  • GC10P071561
  • GC10P065553

Summaries for COL13A1 Gene

Entrez Gene Summary for COL13A1 Gene

  • This gene encodes the alpha chain of one of the nonfibrillar collagens. The function of this gene product is not known, however, it has been detected at low levels in all connective tissue-producing cells so it may serve a general function in connective tissues. Unlike most of the collagens, which are secreted into the extracellular matrix, collagen XIII contains a transmembrane domain and the protein has been localized to the plasma membrane. The transcripts for this gene undergo complex and extensive splicing involving at least eight exons. Like other collagens, collagen XIII is a trimer; it is not known whether this trimer is composed of one or more than one alpha chain isomer. A number of alternatively spliced transcript variants have been described, but the full length nature of some of them has not been determined. [provided by RefSeq, Jul 2008]

GeneCards Summary for COL13A1 Gene

COL13A1 (Collagen, Type XIII, Alpha 1) is a Protein Coding gene. Among its related pathways are ERK Signaling and ERK Signaling. GO annotations related to this gene include heparin binding and extracellular matrix structural constituent. An important paralog of this gene is COL21A1.

UniProtKB/Swiss-Prot for COL13A1 Gene

  • Involved in cell-matrix and cell-cell adhesion interactions that are required for normal development. May participate in the linkage between muscle fiber and basement membrane. May play a role in endochondral ossification of bone and branching morphogenesis of lung. Binds heparin.

Gene Wiki entry for COL13A1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for COL13A1 Gene

Genomics for COL13A1 Gene

Regulatory Elements for COL13A1 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for COL13A1 Gene

69,801,883 bp from pter
69,964,275 bp from pter
162,393 bases
Plus strand

Genomic View for COL13A1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for COL13A1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for COL13A1 Gene

Proteins for COL13A1 Gene

  • Protein details for COL13A1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Collagen alpha-1(XIII) chain
    Protein Accession:
    Secondary Accessions:
    • A6NFR5
    • B9EGD2
    • E7EWL8
    • Q13992
    • Q13993
    • Q13994
    • Q13995
    • Q13996
    • Q5TAT4
    • Q5TAT5
    • Q7KZ33
    • Q7KZ49
    • Q99228
    • Q9NQ52

    Protein attributes for COL13A1 Gene

    717 amino acids
    Molecular mass:
    69950 Da
    Quaternary structure:
    • Homotrimer; disulfide-linked. Nucleation of the type XIII collagen triple helix is likely to occur at the N-terminal region with triple helix formation proceeding from the N- to the C-terminus. Interacts with FN1, perlecan/HSPG2 and NID2.
    • Sequence=AAA51685.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for COL13A1 Gene

neXtProt entry for COL13A1 Gene

Proteomics data for COL13A1 Gene at MOPED

Post-translational modifications for COL13A1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • R&D Systems Antibodies for COL13A1 (Collagen XIII alpha 1)

No data available for DME Specific Peptides for COL13A1 Gene

Domains for COL13A1 Gene

Gene Families for COL13A1 Gene


Protein Domains for COL13A1 Gene

Suggested Antigen Peptide Sequences for COL13A1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with COL13A1: view

No data available for UniProtKB/Swiss-Prot for COL13A1 Gene

Function for COL13A1 Gene

Molecular function for COL13A1 Gene

GENATLAS Biochemistry:
collagen,type XIII,alpha 1,short chain
UniProtKB/Swiss-Prot Function:
Involved in cell-matrix and cell-cell adhesion interactions that are required for normal development. May participate in the linkage between muscle fiber and basement membrane. May play a role in endochondral ossification of bone and branching morphogenesis of lung. Binds heparin.

Gene Ontology (GO) - Molecular Function for COL13A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 11956183
GO:0008201 heparin binding IDA 11956183
genes like me logo Genes that share ontologies with COL13A1: view
genes like me logo Genes that share phenotypes with COL13A1: view

Animal Models for COL13A1 Gene

MGI Knock Outs for COL13A1:

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for COL13A1 Gene

Localization for COL13A1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for COL13A1 Gene

Cell membrane; Single-pass type II membrane protein.

Subcellular locations from

Jensen Localization Image for COL13A1 Gene COMPARTMENTS Subcellular localization image for COL13A1 gene
Compartment Confidence
extracellular 5
plasma membrane 5
endoplasmic reticulum 4
cytosol 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for COL13A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005600 collagen type XIII trimer TAS 2459707
GO:0005788 endoplasmic reticulum lumen TAS --
GO:0005886 plasma membrane TAS --
GO:0005911 cell-cell junction IEA --
genes like me logo Genes that share ontologies with COL13A1: view

Pathways for COL13A1 Gene

genes like me logo Genes that share pathways with COL13A1: view

Interacting Proteins for COL13A1 Gene

Gene Ontology (GO) - Biological Process for COL13A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001763 morphogenesis of a branching structure ISS --
GO:0001958 endochondral ossification ISS --
GO:0007160 cell-matrix adhesion IPI 11956183
GO:0016337 single organismal cell-cell adhesion IEP 10865988
GO:0022617 extracellular matrix disassembly TAS --
genes like me logo Genes that share ontologies with COL13A1: view

Compounds for COL13A1 Gene

(2) HMDB Compounds for COL13A1 Gene

Compound Synonyms Cas Number PubMed IDs
  • Atorvastatin acid
  • (+)-Simvastatin
genes like me logo Genes that share compounds with COL13A1: view

Transcripts for COL13A1 Gene

Unigene Clusters for COL13A1 Gene

Collagen, type XIII, alpha 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for COL13A1

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for COL13A1 Gene

No ASD Table

Relevant External Links for COL13A1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for COL13A1 Gene

mRNA expression in normal human tissues for COL13A1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for COL13A1 Gene

This gene is overexpressed in Brain - Cerebellar Hemisphere (11.5), Brain - Cerebellum (10.8), and Artery - Aorta (4.4).

Protein differential expression in normal tissues for COL13A1 Gene

This gene is overexpressed in Breast (46.6), NK cells (8.7), and Pancreatic juice (8.3).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for COL13A1 Gene

SOURCE GeneReport for Unigene cluster for COL13A1 Gene Hs.695934

mRNA Expression by UniProt/SwissProt for COL13A1 Gene

Tissue specificity: Widely expressed in both fetal and adult ocular tissues (at protein level). In the eye, expression is accentuated in the ciliary muscle, optic nerve and the neural retina. In early placenta, localized to fibroblastoid stromal cells of the placental villi, to endothelial cells of developing capillaries and to cells of the cytotrophoblastic columns. Also detected in large decidual cells of the decidual membrane and to stromal cells of the gestational endometrium, but not in the epithelial cells in the endometrial glands.
genes like me logo Genes that share expressions with COL13A1: view

Expression partners for COL13A1 Gene

In Situ Assay Products

Orthologs for COL13A1 Gene

This gene was present in the common ancestor of animals.

Orthologs for COL13A1 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia COL13A1 35
  • 88.46 (n)
  • 89.44 (a)
COL13A1 36
  • 86 (a)
(Canis familiaris)
Mammalia COL13A1 35
  • 90.57 (n)
  • 92.44 (a)
COL13A1 36
  • 86 (a)
(Mus musculus)
Mammalia Col13a1 35
  • 87.43 (n)
  • 90.68 (a)
Col13a1 16
Col13a1 36
  • 86 (a)
(Pan troglodytes)
Mammalia COL13A1 35
  • 99.18 (n)
  • 99.14 (a)
COL13A1 36
  • 98 (a)
(Rattus norvegicus)
Mammalia Col13a1 35
  • 86.64 (n)
  • 89.64 (a)
(Monodelphis domestica)
Mammalia COL13A1 36
  • 80 (a)
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 81 (a)
-- 36
  • 91 (a)
(Gallus gallus)
Aves COL13A1 35
  • 70.88 (n)
  • 72.1 (a)
COL13A1 36
  • 72 (a)
(Anolis carolinensis)
Reptilia COL13A1 36
  • 73 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100498211 35
  • 61.49 (n)
  • 61.6 (a)
(Danio rerio)
Actinopterygii wu:fb83c11 35
  • 59.3 (n)
  • 59.74 (a)
COL13A1 36
  • 55 (a)
(Caenorhabditis elegans)
Secernentea col-135 36
  • 33 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.2697 35
Species with no ortholog for COL13A1:
  • 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)
  • 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 COL13A1 Gene

Gene Tree for COL13A1 (if available)
Gene Tree for COL13A1 (if available)

Paralogs for COL13A1 Gene

Paralogs for COL13A1 Gene

genes like me logo Genes that share paralogs with COL13A1: view

Variants for COL13A1 Gene

Sequence variations from dbSNP and Humsavar for COL13A1 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type MAF
rs723332 -- 69,901,307(+) GCTCC(A/G)GAGTG intron-variant
rs942563 -- 69,832,997(-) GCCCC(G/T)CGTTC intron-variant
rs942567 -- 69,897,955(-) TGCGG(A/G)AGGCA intron-variant
rs942568 -- 69,897,865(-) AGCAA(A/C)CCGTG intron-variant
rs942569 -- 69,897,847(-) GAGGC(C/T)ATCAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for COL13A1 Gene

Variant ID Type Subtype PubMed ID
esv32737 CNV Gain+Loss 17666407
nsv428233 CNV Gain 18775914
nsv516370 CNV Gain 19592680
nsv7043 CNV Insertion 18451855
nsv519900 CNV Gain 19592680
nsv509358 CNV Insertion 20534489
nsv895699 CNV Loss 21882294
esv2604076 CNV Insertion 19546169
esv267404 CNV Insertion 20981092
esv273870 CNV Insertion 20981092
esv1107415 CNV Insertion 17803354
nsv470962 CNV Loss 18288195
nsv527896 CNV Loss 19592680
nsv520046 CNV Loss 19592680

Relevant External Links for COL13A1 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for COL13A1 Gene

Disorders for COL13A1 Gene

Relevant External Links for COL13A1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator

No disorders were found for COL13A1 Gene.

No data available for MalaCards , OMIM , UniProtKB/Swiss-Prot , University of Copenhagen DISEASES , Novoseek inferred disease relationships and Genatlas for COL13A1 Gene

Publications for COL13A1 Gene

  1. Characterization of the spectrum of alternative splicing of alpha 1 (XIII) collagen transcripts in HT-1080 cells and calvarial tissue resulted in identification of two previously unidentified alternatively spliced sequences, one previously unidentified exon, and nine new mRNA variants. (PMID: 1447209) Juvonen M. … Pihlajaniemi T. (J. Biol. Chem. 1992) 3 4
  2. Patterns of expression of the six alternatively spliced exons affecting the structures of the COL1 and NC2 domains of the alpha 1(XIII) collagen chain in human tissues and cell lines. (PMID: 1447210) Juvonen M. … Pihlajaniemi T. (J. Biol. Chem. 1992) 3 4
  3. The alpha 1 chain of type XIII collagen consists of three collagenous and four noncollagenous domains, and its primary transcript undergoes complex alternative splicing. (PMID: 1698771) Pihlajaniemi T. … Tamminen M. (J. Biol. Chem. 1990) 3 4
  4. Partial characterization of a low molecular weight human collagen that undergoes alternative splicing. (PMID: 3547403) Pihlajaniemi T. … Prockop D.J. (Proc. Natl. Acad. Sci. U.S.A. 1987) 3 4
  5. Location and alternative splicing of type XIII collagen RNA in the early human placenta. (PMID: 8246446) Juvonen M. … Autio-Harmainen H. (Lab. Invest. 1993) 3 4

Products for COL13A1 Gene

Sources for COL13A1 Gene

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