Free for academic non-profit institutions. Other users need a Commercial license

Aliases for HOXC13 Gene

Aliases for HOXC13 Gene

  • Homeobox C13 2 3 5
  • Homeobox Protein Hox-3G 3 4
  • HOX3G 3 4
  • Homeobox Protein Hox-C13 3
  • Homeo Box C13 2
  • Homeo Box 3G 3
  • NUP98/HOXC13 3
  • ECTD9 3
  • HOX3 3

External Ids for HOXC13 Gene

Previous HGNC Symbols for HOXC13 Gene

  • HOX3
  • HOX3G

Previous GeneCards Identifiers for HOXC13 Gene

  • GC12M054479
  • GC12P054444
  • GC12P054049
  • GC12P052618
  • GC12P054332
  • GC12P051370

Summaries for HOXC13 Gene

Entrez Gene Summary for HOXC13 Gene

  • This gene belongs to the homeobox family of genes. The homeobox genes encode a highly conserved family of transcription factors that play an important role in morphogenesis in all multicellular organisms. Mammals possess four similar homeobox gene clusters, HOXA, HOXB, HOXC and HOXD, which are located on different chromosomes and consist of 9 to 11 genes arranged in tandem. This gene is one of several homeobox HOXC genes located in a cluster on chromosome 12. The product of this gene may play a role in the development of hair, nail, and filiform papilla. [provided by RefSeq, Jul 2008]

GeneCards Summary for HOXC13 Gene

HOXC13 (Homeobox C13) is a Protein Coding gene. Diseases associated with HOXC13 include Ectodermal Dysplasia 9, Hair/Nail Type and Ectodermal Dysplasia 4, Hair/Nail Type. GO annotations related to this gene include sequence-specific DNA binding and transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding. An important paralog of this gene is HOXA13.

UniProtKB/Swiss-Prot for HOXC13 Gene

  • Transcription factor which plays a role in hair follicle differentiation. Regulates FOXQ1 expression and that of other hair-specific genes (By similarity).

Gene Wiki entry for HOXC13 Gene

Additional gene information for HOXC13 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HOXC13 Gene

Genomics for HOXC13 Gene

Regulatory Elements for HOXC13 Gene

Enhancers for HOXC13 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
GH12H053971 2 FANTOM5 Ensembl ENCODE dbSUPER 13.6 +51.5 51478 36.8 PKNOX1 FOXA2 ARNT SIN3A FEZF1 DMAP1 ZNF2 ZNF766 ZNF416 ZNF207 HNRNPA1 ZNF740 ENSG00000258344 ATF7 PCBP2 MAP3K12 LOC100652999 SP1 CALCOCO1 AAAS
GH12H054195 1.5 FANTOM5 Ensembl ENCODE 10.5 +257.9 257911 3.1 HDGF PKNOX1 TBL1XR1 KLF17 ZNF121 GLIS2 ZNF366 SMARCC2 FOS KLF7 HOXC8 HOXC-AS1 HOXC-AS2 HOXC9 HOXC6 MIR196A2 MIR615 HOXC4 HOXC5 LOC102724030
GH12H054051 1.1 ENCODE 10.4 +114.8 114753 4.8 HDGF PKNOX1 ARNT FEZF1 ZNF2 ZNF143 SP3 JUNB ZNF610 ZSCAN16 AAAS ATF7 RARG CBX5 HNRNPA1 ENSG00000260470 LOC105378250 PCBP2 SP1 HOTAIR
GH12H053844 1 ENCODE dbSUPER 10.9 -93.0 -92994 2.8 NFIB JUN RAD21 ZBTB7B RFX5 GATA3 SMC3 RCOR1 FOSL2 FOS EIF4B HOXC13 HOXC13-AS HOXC6 HOXC4 HOXC5 MIR615 CALCOCO1 LOC100240735 GC12P053837
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around HOXC13 on UCSC Golden Path with GeneCards custom track

Genomic Locations for HOXC13 Gene

Genomic Locations for HOXC13 Gene
7,780 bases
Plus strand

Genomic View for HOXC13 Gene

Genes around HOXC13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HOXC13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HOXC13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HOXC13 Gene

Proteins for HOXC13 Gene

  • Protein details for HOXC13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Homeobox protein Hox-C13
    Protein Accession:
    Secondary Accessions:
    • Q5BL02
    • Q96J32
    • Q9NR24
    • Q9NYD5

    Protein attributes for HOXC13 Gene

    330 amino acids
    Molecular mass:
    35379 Da
    Quaternary structure:
    No Data Available

neXtProt entry for HOXC13 Gene

Post-translational modifications for HOXC13 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HOXC13 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HOXC13 Gene

Domains & Families for HOXC13 Gene

Gene Families for HOXC13 Gene

Human Protein Atlas (HPA):
  • Cancer-related genes
  • Disease related genes
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for HOXC13 Gene

Suggested Antigen Peptide Sequences for HOXC13 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the Abd-B homeobox family.
  • Belongs to the Abd-B homeobox family.
genes like me logo Genes that share domains with HOXC13: view

Function for HOXC13 Gene

Molecular function for HOXC13 Gene

GENATLAS Biochemistry:
homeo box C13(3G)
UniProtKB/Swiss-Prot Function:
Transcription factor which plays a role in hair follicle differentiation. Regulates FOXQ1 expression and that of other hair-specific genes (By similarity).

Phenotypes From GWAS Catalog for HOXC13 Gene

Gene Ontology (GO) - Molecular Function for HOXC13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding IEA --
GO:0003677 DNA binding IEA --
GO:0003682 chromatin binding IEA --
GO:0005515 protein binding IPI 18692240
GO:0043565 sequence-specific DNA binding IEA --
genes like me logo Genes that share ontologies with HOXC13: view
genes like me logo Genes that share phenotypes with HOXC13: view

Human Phenotype Ontology for HOXC13 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for HOXC13 Gene

MGI Knock Outs for HOXC13:

Clone Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for HOXC13 Gene

Localization for HOXC13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HOXC13 Gene

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 HOXC13 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for HOXC13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with HOXC13: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for HOXC13 Gene

Pathways & Interactions for HOXC13 Gene

SuperPathways for HOXC13 Gene

No Data Available

SIGNOR curated interactions for HOXC13 Gene


Gene Ontology (GO) - Biological Process for HOXC13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001942 hair follicle development IEA --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription from RNA polymerase II promoter IEA --
GO:0007275 multicellular organism development IEA --
genes like me logo Genes that share ontologies with HOXC13: view

No data available for Pathways by source for HOXC13 Gene

Drugs & Compounds for HOXC13 Gene

No Compound Related Data Available

Transcripts for HOXC13 Gene

mRNA/cDNA for HOXC13 Gene

(1) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(41) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for HOXC13 Gene

Homeobox C13:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HOXC13 Gene

No ASD Table

Relevant External Links for HOXC13 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HOXC13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HOXC13 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HOXC13 Gene

This gene is overexpressed in Skin - Not Sun Exposed (Suprapubic) (x25.7) and Skin - Sun Exposed (Lower leg) (x17.1).

Protein differential expression in normal tissues from HIPED for HOXC13 Gene

This gene is overexpressed in Prostate (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HOXC13 Gene

Protein tissue co-expression partners for HOXC13 Gene

NURSA nuclear receptor signaling pathways regulating expression of HOXC13 Gene:


SOURCE GeneReport for Unigene cluster for HOXC13 Gene:


Evidence on tissue expression from TISSUES for HOXC13 Gene

  • Eye(4.1)
  • Skin(2.4)

Phenotype-based relationships between genes and organs from Gene ORGANizer for HOXC13 Gene

Germ Layers:
  • ectoderm
  • integumentary
Head and neck:
  • eye
  • eyelid
  • face
  • forehead
  • head
  • jaw
  • mandible
  • maxilla
  • mouth
  • skull
  • tooth
  • digit
  • finger
  • foot
  • hand
  • lower limb
  • nail
  • toe
  • upper limb
  • hair
  • skin
  • sweat gland
genes like me logo Genes that share expression patterns with HOXC13: view

No data available for mRNA Expression by UniProt/SwissProt for HOXC13 Gene

Orthologs for HOXC13 Gene

This gene was present in the common ancestor of animals.

Orthologs for HOXC13 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia HOXC13 33 34
  • 99.7 (n)
(Ornithorhynchus anatinus)
Mammalia HOXC13 34
  • 96 (a)
(Canis familiaris)
Mammalia HOXC13 33 34
  • 95.06 (n)
(Bos Taurus)
Mammalia HOXC13 33 34
  • 93.84 (n)
(Rattus norvegicus)
Mammalia Hoxc13 33
  • 93.19 (n)
(Mus musculus)
Mammalia Hoxc13 33 16 34
  • 91.97 (n)
(Anolis carolinensis)
Reptilia HOXC13 34
  • 80 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100487255 33
  • 71.71 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.13513 33
(Danio rerio)
Actinopterygii hoxc13a 33 34
  • 70.86 (n)
hoxc13b 34
  • 67 (a)
Dr.15286 33
fruit fly
(Drosophila melanogaster)
Insecta Abd-B 34
  • 15 (a)
Species where no ortholog for HOXC13 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)
  • 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)
  • 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)
  • oppossum (Monodelphis domestica)
  • 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 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)
  • worm (Caenorhabditis elegans)

Evolution for HOXC13 Gene

Gene Tree for HOXC13 (if available)
Gene Tree for HOXC13 (if available)

Paralogs for HOXC13 Gene

Paralogs for HOXC13 Gene

genes like me logo Genes that share paralogs with HOXC13: view

Variants for HOXC13 Gene

Sequence variations from dbSNP and Humsavar for HOXC13 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs398122377 Pathogenic 53,939,261(+) CCACC(-/C)TGGGC intron-variant, reference, frameshift-variant
rs398122913 Pathogenic 53,939,296(+) TACTA(A/C/T)GGCTG intron-variant, reference, synonymous-codon, stop-gained
rs1000039708 -- 53,939,835(+) CTCTG(C/T)AGCTG intron-variant, upstream-variant-2KB
rs1000091934 -- 53,940,069(+) AAGAA(A/C)CCCCA intron-variant, upstream-variant-2KB
rs1000751974 -- 53,939,655(+) AGGGA(-/C)CCGAG intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HOXC13 Gene

Variant ID Type Subtype PubMed ID
nsv826379 CNV gain 20364138

Variation tolerance for HOXC13 Gene

Residual Variation Intolerance Score: 48.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.12; 51.23% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HOXC13 Gene

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HOXC13 Gene

Disorders for HOXC13 Gene

MalaCards: The human disease database

(7) MalaCards diseases for HOXC13 Gene - From: HGMD, OMIM, ClinVar, Orphanet, DISEASES, and GeneCards

- elite association - COSMIC cancer census association via MalaCards


  • Ectodermal dysplasia 9, hair/nail type (ECTD9) [MIM:614931]: A form of ectodermal dysplasia, a heterogeneous group of disorders due to abnormal development of two or more ectodermal structures such as hair, teeth, nails and sweat glands, with or without any additional clinical sign. Each combination of clinical features represents a different type of ectodermal dysplasia. ECTD9 is characterized by hypotrichosis and nail dystrophy without non-ectodermal or other ectodermal manifestations. Hypotrichosis usually occurs after birth with varying degrees of severity, ranging from mild hair loss to complete atrichia, including the loss of scalp hair, beard, eyebrows, eyelashes, axillary hair, and pubic hair. Nail dystrophy affects all 20 digits by causing short fragile nails or spoon nails (koilonychia). {ECO:0000269 PubMed:23063621}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for HOXC13

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 HOXC13: view

No data available for Genatlas for HOXC13 Gene

Publications for HOXC13 Gene

  1. Loss-of-function mutations in HOXC13 cause pure hair and nail ectodermal dysplasia. (PMID: 23063621) Lin Z … Yang Y (American journal of human genetics 2012) 3 4 60
  2. Meta-analysis identifies 13 new loci associated with waist-hip ratio and reveals sexual dimorphism in the genetic basis of fat distribution. (PMID: 20935629) Heid IM … Lindgren CM (Nature genetics 2010) 3 45 60
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  4. Krtap16, characterization of a new hair keratin-associated protein (KAP) gene complex on mouse chromosome 16 and evidence for regulation by Hoxc13. (PMID: 15385554) Pruett ND … Awgulewitsch A (The Journal of biological chemistry 2004) 3 22 60
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60

Products for HOXC13 Gene

Sources for HOXC13 Gene

Loading form....