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Aliases for HOXC12 Gene

Subcategory (RNA class) for HOXC12 Gene


Aliases for HOXC12 Gene

  • Homeobox C12 2 3 5
  • Homeobox Protein Hox-3F 3 4
  • Homeo Box C12 2 3
  • HOC3F 3 4
  • HOX3F 3 4
  • Homeo Box 3F 3
  • HOX3 3

External Ids for HOXC12 Gene

ORGUL Members for HOXC12 Gene

Previous HGNC Symbols for HOXC12 Gene

  • HOX3
  • HOX3F
  • HOC3F

Previous GeneCards Identifiers for HOXC12 Gene

  • GC12U990037
  • GC12P054461
  • GC12P054065
  • GC12P052634
  • GC12P054349
  • GC12P051386
  • GC12P054354
  • GC12P054358

Summaries for HOXC12 Gene

Entrez Gene Summary for HOXC12 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. [provided by RefSeq, Jul 2008]

GeneCards Summary for HOXC12 Gene

HOXC12 (Homeobox C12) is a Protein Coding gene, and is affiliated with the lncRNA class. GO annotations related to this gene include sequence-specific DNA binding. An important paralog of this gene is HOXD10.

UniProtKB/Swiss-Prot for HOXC12 Gene

  • Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Gene Wiki entry for HOXC12 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HOXC12 Gene

Genomics for HOXC12 Gene

Regulatory Elements for HOXC12 Gene

Enhancers for HOXC12 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 HOXC12 on UCSC Golden Path with GeneCards custom track

Genomic Location for HOXC12 Gene

53,954,834 bp from pter
53,958,956 bp from pter
4,123 bases
Plus strand

Genomic View for HOXC12 Gene

Genes around HOXC12 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HOXC12 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HOXC12 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HOXC12 Gene

Proteins for HOXC12 Gene

  • Protein details for HOXC12 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Homeobox protein Hox-C12
    Protein Accession:
    Secondary Accessions:
    • Q9BXJ6

    Protein attributes for HOXC12 Gene

    282 amino acids
    Molecular mass:
    30171 Da
    Quaternary structure:
    No Data Available

neXtProt entry for HOXC12 Gene

Proteomics data for HOXC12 Gene at MOPED

Post-translational modifications for HOXC12 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HOXC12 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HOXC12 Gene

Domains & Families for HOXC12 Gene

Gene Families for HOXC12 Gene

Suggested Antigen Peptide Sequences for HOXC12 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 homeobox DNA-binding domain.
  • Belongs to the Abd-B homeobox family.
  • Contains 1 homeobox DNA-binding domain.
  • Belongs to the Abd-B homeobox family.
genes like me logo Genes that share domains with HOXC12: view

Function for HOXC12 Gene

Molecular function for HOXC12 Gene

GENATLAS Biochemistry:
homeo box C12(3F)
UniProtKB/Swiss-Prot Function:
Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.
genes like me logo Genes that share phenotypes with HOXC12: view

Animal Model Products

miRNA for HOXC12 Gene

miRTarBase miRNAs that target HOXC12

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HOXC12 Gene

Localization for HOXC12 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HOXC12 Gene

Subcellular locations from

Jensen Localization Image for HOXC12 Gene COMPARTMENTS Subcellular localization image for HOXC12 gene
Compartment Confidence
nucleus 5

No data available for Gene Ontology (GO) - Cellular Components for HOXC12 Gene

Pathways & Interactions for HOXC12 Gene

SuperPathways for HOXC12 Gene

No Data Available

Gene Ontology (GO) - Biological Process for HOXC12 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with HOXC12: view

No data available for Pathways by source and SIGNOR curated interactions for HOXC12 Gene

Drugs & Compounds for HOXC12 Gene

No Compound Related Data Available

Transcripts for HOXC12 Gene

mRNA/cDNA for HOXC12 Gene

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

Unigene Clusters for HOXC12 Gene

Homeobox C12:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HOXC12 Gene

No ASD Table

Relevant External Links for HOXC12 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HOXC12 Gene

mRNA expression in normal human tissues for HOXC12 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HOXC12 Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (x18.2), Artery - Tibial (x10.4), Skin - Not Sun Exposed (Suprapubic) (x9.4), and Adipose - Subcutaneous (x7.4).

Protein differential expression in normal tissues from HIPED for HOXC12 Gene

This gene is overexpressed in Bone (32.2), Spleen (25.0), and Testis (11.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for HOXC12 Gene

SOURCE GeneReport for Unigene cluster for HOXC12 Gene Hs.381267

genes like me logo Genes that share expression patterns with HOXC12: view

Protein tissue co-expression partners for HOXC12 Gene

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for HOXC12 Gene

Orthologs for HOXC12 Gene

This gene was present in the common ancestor of chordates.

Orthologs for HOXC12 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia HOXC12 35
  • 95.1 (n)
  • 98.21 (a)
HOXC12 36
  • 98 (a)
(Canis familiaris)
Mammalia HOXC12 35
  • 92.61 (n)
  • 94.55 (a)
HOXC12 36
  • 95 (a)
(Mus musculus)
Mammalia Hoxc12 35
  • 90 (n)
  • 95 (a)
Hoxc12 16
Hoxc12 36
  • 96 (a)
(Pan troglodytes)
Mammalia HOXC12 35
  • 98.57 (n)
  • 97.86 (a)
HOXC12 36
  • 99 (a)
(Rattus norvegicus)
Mammalia Hoxc12 35
  • 90.12 (n)
  • 95.71 (a)
(Ornithorhynchus anatinus)
Mammalia HOXC12 36
  • 95 (a)
(Gallus gallus)
Aves HOXC12 35
  • 73.99 (n)
  • 82.95 (a)
HOXC12 36
  • 82 (a)
(Anolis carolinensis)
Reptilia HOXC12 36
  • 99 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia hoxc12 35
  • 71.28 (n)
  • 77.31 (a)
African clawed frog
(Xenopus laevis)
Amphibia hoxc12-A 35
(Danio rerio)
Actinopterygii hoxc12a 35
  • 66.79 (n)
  • 70.79 (a)
hoxc12a 36
  • 69 (a)
hoxc12b 36
  • 53 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 16 (a)
Species with no ortholog for HOXC12:
  • 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)
  • 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)
  • 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 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 HOXC12 Gene

Gene Tree for HOXC12 (if available)
Gene Tree for HOXC12 (if available)

Paralogs for HOXC12 Gene

(1) SIMAP similar genes for HOXC12 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with HOXC12: view

Variants for HOXC12 Gene

Sequence variations from dbSNP and Humsavar for HOXC12 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs147465854 -- 53,952,982(+) TCCTG(C/T)TCATT upstream-variant-2KB
rs747257443 -- 53,952,959(+) AAAAG(A/G)CCAAT upstream-variant-2KB
rs777981217 -- 53,952,936(+) CAGCC(C/T)CTTAT upstream-variant-2KB
rs796617488 -- 53,953,046(+) GGCTT(A/G)CCCTA upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HOXC12 Gene

Variant ID Type Subtype PubMed ID
nsv826379 CNV Gain 20364138
nsv899100 CNV Loss 21882294
dgv512e1 CNV Complex 17122850
nsv428282 CNV Gain 18775914

Variation tolerance for HOXC12 Gene

Residual Variation Intolerance Score: 42.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.64; 45.60% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for HOXC12 Gene

Disorders for HOXC12 Gene

Relevant External Links for HOXC12

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for HOXC12 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HOXC12 Gene

Publications for HOXC12 Gene

  1. Complete mutation analysis panel of the 39 human HOX genes. (PMID: 11857506) Kosaki K. … Matsuo N. (Teratology 2002) 3 4 67
  2. Vertebrate homeobox gene nomenclature. (PMID: 1358459) Scott M.P. (Cell 1992) 2 3
  3. Nomenclature for human homeobox genes. (PMID: 1973146) McAlpine P.J. … Shows T.B. (Genomics 1990) 2 3
  4. Distinct patterns of all-trans retinoic acid dependent expression of HOXB and HOXC homeogenes in human embryonal and small-cell lung carcinoma cell lines. (PMID: 9357979) Flagiello D. … Malfoy B. (FEBS Lett. 1997) 3
  5. The human HOX gene family. (PMID: 2574852) Acampora D. … Boncinelli E. (Nucleic Acids Res. 1989) 3

Products for HOXC12 Gene

Sources for HOXC12 Gene