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Aliases for HOXC4 Gene

Aliases for HOXC4 Gene

  • Homeobox C4 2 3
  • HOX3E 3 4 6
  • Homeobox Protein Hox-3E 3 4
  • Homeobox Protein CP19 3 4
  • Homeo Box C4 2 3
  • Homeobox Protein Hox-C4 3
  • Homeo Box 3E 3
  • HOX3 3
  • Cp19 3

External Ids for HOXC4 Gene

Previous HGNC Symbols for HOXC4 Gene

  • HOX3
  • HOX3E

Previous GeneCards Identifiers for HOXC4 Gene

  • GC12M054370
  • GC12P054523
  • GC12P054127
  • GC12P052696
  • GC12P054410
  • GC12P051448

Summaries for HOXC4 Gene

Entrez Gene Summary for HOXC4 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, HOXC4, is one of several homeobox HOXC genes located in a cluster on chromosome 12. Three genes, HOXC5, HOXC4 and HOXC6, share a 5' non-coding exon. Transcripts may include the shared exon spliced to the gene-specific exons, or they may include only the gene-specific exons. Two alternatively spliced variants that encode the same protein have been described for HOXC4. Transcript variant one includes the shared exon, and transcript variant two includes only gene-specific exons. [provided by RefSeq, Jul 2008]

GeneCards Summary for HOXC4 Gene

HOXC4 (Homeobox C4) is a Protein Coding gene. Diseases associated with HOXC4 include vacterl association. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity and HMG box domain binding. An important paralog of this gene is HOXA7.

UniProtKB/Swiss-Prot for HOXC4 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 HOXC4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HOXC4 Gene

Genomics for HOXC4 Gene

Regulatory Elements for HOXC4 Gene

Transcription factor binding sites by QIAGEN in the HOXC4 gene promoter:

Genomic Location for HOXC4 Gene

54,016,852 bp from pter
54,056,030 bp from pter
39,179 bases
Plus strand

Genomic View for HOXC4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for HOXC4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HOXC4 Gene

Proteins for HOXC4 Gene

  • Protein details for HOXC4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Homeobox protein Hox-C4
    Protein Accession:
    Secondary Accessions:

    Protein attributes for HOXC4 Gene

    264 amino acids
    Molecular mass:
    29811 Da
    Quaternary structure:
    No Data Available

neXtProt entry for HOXC4 Gene

Proteomics data for HOXC4 Gene at MOPED

Post-translational modifications for HOXC4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HOXC4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HOXC4 Gene

Domains for HOXC4 Gene

Gene Families for HOXC4 Gene

  • HOXL :Homeoboxes / ANTP class : HOXL subclass

Suggested Antigen Peptide Sequences for HOXC4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • P09017
  • Contains 1 homeobox DNA-binding domain.
  • Belongs to the Antp homeobox family. Deformed subfamily.
genes like me logo Genes that share domains with HOXC4: view

Function for HOXC4 Gene

Molecular function for HOXC4 Gene

GENATLAS Biochemistry: homeo box C4(3E),Drosophila Dfd,expressed in first trimester trophoblast,involved in mouse anterior limb patterning,expressed in anterior limb
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 HOXC4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding --
GO:0003700 sequence-specific DNA binding transcription factor activity IEA --
GO:0005515 protein binding IPI 23455924
GO:0043565 sequence-specific DNA binding IEA --
GO:0071837 HMG box domain binding IEA --
genes like me logo Genes that share ontologies with HOXC4: view
genes like me logo Genes that share phenotypes with HOXC4: view

Animal Models for HOXC4 Gene

MGI Knock Outs for HOXC4:

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for HOXC4 Gene

Localization for HOXC4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HOXC4 Gene

Subcellular locations from

Jensen Localization Image for HOXC4 Gene COMPARTMENTS Subcellular localization image for HOXC4 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for HOXC4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
genes like me logo Genes that share ontologies with HOXC4: view

Pathways for HOXC4 Gene

SuperPathways for HOXC4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for HOXC4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001501 skeletal system development --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007275 multicellular organismal development --
GO:0009952 anterior/posterior pattern specification IEA --
genes like me logo Genes that share ontologies with HOXC4: view

No data available for Pathways by source for HOXC4 Gene

Transcripts for HOXC4 Gene

mRNA/cDNA for HOXC4 Gene

Unigene Clusters for HOXC4 Gene

Homeobox C4:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HOXC4 Gene

No ASD Table

Relevant External Links for HOXC4 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HOXC4 Gene

mRNA expression in normal human tissues for HOXC4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HOXC4 Gene

This gene is overexpressed in Fallopian Tube (7.0), Kidney - Cortex (4.2), and Artery - Tibial (4.1).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for HOXC4 Gene

SOURCE GeneReport for Unigene cluster for HOXC4 Gene Hs.549040

genes like me logo Genes that share expressions with HOXC4: view

No data available for mRNA Expression by UniProt/SwissProt for HOXC4 Gene

Orthologs for HOXC4 Gene

This gene was present in the common ancestor of animals.

Orthologs for HOXC4 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia HOXC4 35
  • 99.75 (n)
  • 100 (a)
HOXC4 36
  • 100 (a)
(Bos Taurus)
Mammalia HOXC4 35
  • 98.48 (n)
  • 99.62 (a)
HOXC4 36
  • 100 (a)
(Canis familiaris)
Mammalia HOXC4 35
  • 97.85 (n)
  • 99.24 (a)
HOXC4 36
  • 99 (a)
(Mus musculus)
Mammalia Hoxc4 35
  • 97.35 (n)
  • 98.86 (a)
Hoxc4 16
Hoxc4 36
  • 99 (a)
(Rattus norvegicus)
Mammalia Hoxc4 35
  • 97.47 (n)
  • 99.24 (a)
(Anolis carolinensis)
Reptilia -- 36
  • 76 (a)
African clawed frog
(Xenopus laevis)
Amphibia hoxc6-A-prov 35
tropical clawed frog
(Silurana tropicalis)
Amphibia hoxc4 35
  • 72.03 (n)
  • 74.51 (a)
Str.7417 35
(Danio rerio)
Actinopterygii hoxc4a 35
  • 67.94 (n)
  • 70.5 (a)
hoxc4a 36
  • 59 (a)
fruit fly
(Drosophila melanogaster)
Insecta Dfd 36
  • 19 (a)
Dfd 37
  • 81 (a)
Scr 37
  • 68 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 27 (a)
Species with no ortholog for HOXC4:
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 HOXC4 Gene

Gene Tree for HOXC4 (if available)
Gene Tree for HOXC4 (if available)

Paralogs for HOXC4 Gene

Selected SIMAP similar genes for HOXC4 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with HOXC4: view

Variants for HOXC4 Gene

Sequence variations from dbSNP and Humsavar for HOXC4 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type MAF
rs727762 -- 54,048,314(+) CTCAC(A/G)GAGGT intron-variant
rs765634 -- 54,039,213(+) AGGGG(A/G)GCATG intron-variant
rs1386015 -- 54,052,992(+) TTGGA(A/G)ATAAT intron-variant, upstream-variant-2KB
rs1843638 -- 54,047,298(+) GGAGC(A/C)CAAAA intron-variant
rs2277371 -- 54,053,018(+) GGCCG(A/G)GCTGA intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HOXC4 Gene

Variant ID Type Subtype PubMed ID
nsv826379 CNV Gain 20364138
nsv899100 CNV Loss 21882294
dgv512e1 CNV Complex 17122850
nsv428282 CNV Gain 18775914
nsv899102 CNV Loss 21882294
esv2672088 CNV Deletion 23128226
nsv832418 CNV Loss 17160897
nsv716 CNV Insertion 18451855

Relevant External Links for HOXC4 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HOXC4 Gene

Disorders for HOXC4 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for HOXC4 Gene including...

Search for HOXC4 Gene in MalaCards »

(1) University of Copenhagen DISEASES for HOXC4 Gene

(3) Novoseek inferred disease relationships for HOXC4 Gene

Disease -log(P) Hits PubMed IDs
lymphoma non-hodgkins 46.6 2
leukemia 33.7 3
lymphoma 22.7 2

Relevant External Links for HOXC4

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
genes like me logo Genes that share disorders with HOXC4: view

No data available for UniProtKB/Swiss-Prot for HOXC4 Gene

Publications for HOXC4 Gene

  1. Analysis of single nucleotide polymorphisms and haplotypes in HOXC gene cluster within susceptible region 12q13 of simple congenital heart disease. (PMID: 16215934) Gong L.G. … Sun K.L. (Zhonghua Yi Xue Yi Chuan Xue Za Zhi 2005) 3 23 48
  2. [Effect of human cytomegalovirus infection on the expression of hoxc4 and hoxc6 genes in the proliferation of lymphocytic progenitor cells]. (PMID: 19236766) Feng J.Q. … Chen S.Q. (Zhongguo Shi Yan Xue Ye Xue Za Zhi 2009) 3 23
  3. Vertebrate homeobox gene nomenclature. (PMID: 1358459) Scott M.P. (Cell 1992) 2 3
  4. Nomenclature for human homeobox genes. (PMID: 1973146) McAlpine P.J. … Shows T.B. (Genomics 1990) 2 3
  5. Expression of HOXC4 homeoprotein in the nucleus of activated human lymphocytes. (PMID: 7718879) Meazza R. … Corte G. (Blood 1995) 3 23

Products for HOXC4 Gene

Sources for HOXC4 Gene

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