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Aliases for HOXC12 Gene

Subcategory (RNA class) for HOXC12 Gene


Aliases for HOXC12 Gene

  • Homeobox C12 2 3
  • HOX3F 3 4 6
  • Homeobox Protein Hox-3F 3 4
  • Homeo Box C12 2 3
  • HOC3F 3 4
  • Homeobox Protein Hox-C12 3
  • Homeo Box 3F 3
  • HOX3 3

External Ids for HOXC12 Gene

ORGUL Members for HOXC12 Gene

Previous Symbols for HOXC12 Gene

  • HOX3
  • HOX3F
  • HOC3F

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 belongs to the lncRNA class. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity and 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

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

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for HOXC12 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HOXC12 Gene

Regulatory Elements 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

No Post-translational modifications

Other Protein References for HOXC12 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HOXC12 Gene

Domains for HOXC12 Gene

Gene Families for HOXC12 Gene

  • HOXL :Homeoboxes / ANTP class : HOXL subclass

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.:
    • P31275
  • Belongs to the Abd-B homeobox family.:
    • P31275
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

Gene Ontology (GO) - Molecular Function for HOXC12 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding --
GO:0043565 sequence-specific DNA binding IEA --
genes like me logo Genes that share ontologies with HOXC12: view

miRNA for HOXC12 Gene

miRTarBase miRNAs that target HOXC12

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting 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

Gene Ontology (GO) - Cellular Components for HOXC12 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with HOXC12: view

Pathways 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 --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007275 multicellular organismal development IEA --
genes like me logo Genes that share ontologies with HOXC12: view

No data available for Pathways by source for HOXC12 Gene

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) (18.2), Artery - Tibial (10.4), Skin - Not Sun Exposed (Suprapubic) (9.4), and Adipose - Subcutaneous (7.4).

Integrated Proteomics: protein expression 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 expressions with HOXC12: view

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
(Pan troglodytes)
Mammalia HOXC12 35
  • 98.57 (n)
  • 97.86 (a)
HOXC12 36
  • 99 (a)
(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)
(Ornithorhynchus anatinus)
Mammalia HOXC12 36
  • 95 (a)
(Rattus norvegicus)
Mammalia Hoxc12 35
  • 90.12 (n)
  • 95.71 (a)
(Gallus gallus)
Aves HOXC12 35
  • 73.99 (n)
  • 82.95 (a)
HOXC12 36
  • 82 (a)
(Anolis carolinensis)
Reptilia HOXC12 36
  • 99 (a)
African clawed frog
(Xenopus laevis)
Amphibia hoxc12-A 35
tropical clawed frog
(Silurana tropicalis)
Amphibia hoxc12 35
  • 71.28 (n)
  • 77.31 (a)
(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

Selected 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 MAF
rs894739 -- 53,953,085(+) CCGGC(C/T)CCTGG upstream-variant-2KB
rs2366149 -- 53,953,914(+) AGGCT(G/T)GGCCG upstream-variant-2KB
rs4332564 -- 53,954,369(-) AGAGG(A/C)GAAGT upstream-variant-2KB
rs4759310 -- 53,954,765(+) AGTTA(C/G)AGTGC upstream-variant-2KB
rs10783615 -- 53,955,989(+) GAAGG(A/G)ACCAG intron-variant

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

Relevant External Links for HOXC12 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HOXC12 Gene

Disorders for HOXC12 Gene

No disorders were found for HOXC12 Gene.

No data available for UniProtKB/Swiss-Prot for HOXC12 Gene

Publications for HOXC12 Gene

  1. Vertebrate homeobox gene nomenclature. (PMID: 1358459) Scott M.P. (Cell 1992) 2 3
  2. Nomenclature for human homeobox genes. (PMID: 1973146) McAlpine P.J. … Shows T.B. (Genomics 1990) 2 3
  3. The human HOX gene family. (PMID: 2574852) Acampora D. … Boncinelli E. (Nucleic Acids Res. 1989) 3 4
  4. Complete mutation analysis panel of the 39 human HOX genes. (PMID: 11857506) Kosaki K. … Matsuo N. (Teratology 2002) 3 4
  5. 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

Products for HOXC12 Gene

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat
  • Pathway & Disease-focused RT² Profiler PCR Arrays
  • QIAGEN qRT-PCR Assays for microRNAs that regulate HOXC12
    • QuantiTect SYBR Green Assays in human,mouse,rat
    • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
    • QuantiFast Probe-based Assays in human,mouse,rat
    • Predesigned siRNA for gene silencing in human,mouse,rat for HOXC12
    • Block miRNA regulation of HOXC12 using miScript Target Protectors

    Sources for HOXC12 Gene

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