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Aliases for HOXC4 Gene

Aliases for HOXC4 Gene

  • Homeobox C4 2 3 5
  • Homeobox Protein Hox-3E 3 4
  • Homeobox Protein CP19 3 4
  • HOX3E 3 4
  • Homeobox Protein Hox-C4 3
  • Homeo Box C4 2
  • 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. Among its related pathways are Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 and Developmental Biology. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding and HMG box domain binding. An important paralog of this gene is HOXB4.

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

Additional gene information for HOXC4 Gene

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

Genomics for HOXC4 Gene

Regulatory Elements for HOXC4 Gene

Enhancers for HOXC4 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 20.4 -26.6 -26610 36 PKNOX1 FOXA2 ARNT SIN3A FEZF1 DMAP1 ZNF2 ZNF766 ZNF416 ZNF207 HNRNPA1 ZNF740 ENSG00000258344 ATF7 PCBP2 MAP3K12 LOC100652999 SP1 CALCOCO1 AAAS
GH12H054009 2.5 VISTA FANTOM5 Ensembl ENCODE dbSUPER 8.9 +5.3 5251 25 HDGF PKNOX1 ARNT SIN3A FEZF1 ZNF2 CBX5 ZNF143 ZNF207 DEK RARG AAAS ATF7 ENSG00000260470 LOC105378250 HOXC8 SMUG1 IGFBP6 HOXC-AS1 CBX5
GH12H054354 2.1 FANTOM5 Ensembl ENCODE dbSUPER 10.3 +341.2 341150 6 FEZF1 YBX1 YY1 ZNF143 SP3 MCM3 NFYC MEF2D ZNF610 GLIS1 SP1 PCBP2 ENSG00000258344 CBX5 GPR84 ZNF385A MAP3K12 ATF7 LOC100652999 HNRNPA1
GH12H054215 1.6 FANTOM5 Ensembl ENCODE 11.2 +200.2 200249 2 HDGF PKNOX1 ATF1 ARNT SIN3A ZNF2 ETS1 ZNF121 GLIS2 ZNF143 GPR84 HOXC8 HOXC-AS1 HOXC6 HOXC-AS2 HOXC9 HOXC4 HOXC5 ENSG00000257534 FLJ12825
GH12H054195 1.5 FANTOM5 Ensembl ENCODE 11.8 +179.8 179824 3 HDGF PKNOX1 TBL1XR1 KLF17 ZNF121 GLIS2 ZNF366 SMARCC2 FOS KLF7 HOXC8 HOXC-AS1 HOXC-AS2 HOXC9 HOXC6 MIR196A2 MIR615 HOXC4 HOXC5 LOC102724030
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around HOXC4 on UCSC Golden Path with GeneCards custom track

Promoters for HOXC4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000052281 648 1801 HDGF PKNOX1 ARNT SIN3A FEZF1 ZNF2 ZNF207 SP3 SMARCB1 ZNF592

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

Genomic Location for HOXC4 Gene

Chromosome:
12
Start:
54,016,852 bp from pter
End:
54,056,030 bp from pter
Size:
39,179 bases
Orientation:
Plus strand

Genomic View for HOXC4 Gene

Genes around HOXC4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HOXC4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
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:
    P09017-HXC4_HUMAN
    Recommended name:
    Homeobox protein Hox-C4
    Protein Accession:
    P09017

    Protein attributes for HOXC4 Gene

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

neXtProt entry for HOXC4 Gene

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 & Families for HOXC4 Gene

Gene Families for HOXC4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Suggested Antigen Peptide Sequences for HOXC4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P09017

UniProtKB/Swiss-Prot:

HXC4_HUMAN :
  • Belongs to the Antp homeobox family. Deformed subfamily.
Family:
  • 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.

Phenotypes From GWAS Catalog for HOXC4 Gene

Gene Ontology (GO) - Molecular Function for HOXC4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000980 RNA polymerase II distal enhancer sequence-specific DNA binding IDA 15252056
GO:0001205 transcriptional activator activity, RNA polymerase II distal enhancer sequence-specific binding IDA 15252056
GO:0003677 DNA binding IEA --
GO:0003700 transcription factor activity, sequence-specific DNA binding IEA --
GO:0005515 protein binding IPI 23455924
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:

Animal Model Products

CRISPR Products

miRNA for HOXC4 Gene

miRTarBase miRNAs that target HOXC4

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for HOXC4
  • Applied Biological Materials Clones for HOXC4
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HOXC4 Gene

Localization for HOXC4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HOXC4 Gene

Subcellular locations from

COMPARTMENTS
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 HOXC4 gene
Compartment Confidence
nucleus 5

Subcellular locations from the

Human Protein Atlas (HPA)

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 & Interactions for HOXC4 Gene

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

Gene Ontology (GO) - Biological Process for HOXC4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001501 skeletal system 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 HOXC4: view

No data available for SIGNOR curated interactions for HOXC4 Gene

Drugs & Compounds for HOXC4 Gene

No Compound Related Data Available

Transcripts for HOXC4 Gene

mRNA/cDNA for HOXC4 Gene

Unigene Clusters for HOXC4 Gene

Homeobox C4:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for HOXC4
  • Applied Biological Materials Clones for HOXC4
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

No ASD Table

Relevant External Links for HOXC4 Gene

GeneLoc Exon Structure for
HOXC4
ECgene alternative splicing isoforms for
HOXC4

Expression for HOXC4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE 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 (x7.0), Kidney - Cortex (x4.2), and Artery - Tibial (x4.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for HOXC4 Gene



NURSA nuclear receptor signaling pathways regulating expression of HOXC4 Gene:

HOXC4

SOURCE GeneReport for Unigene cluster for HOXC4 Gene:

Hs.549040
genes like me logo Genes that share expression patterns with HOXC4: view

Primer Products

No data available for Protein differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer 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
chimpanzee
(Pan troglodytes)
Mammalia HOXC4 33 34
  • 99.75 (n)
cow
(Bos Taurus)
Mammalia HOXC4 33 34
  • 98.48 (n)
dog
(Canis familiaris)
Mammalia HOXC4 33 34
  • 97.85 (n)
rat
(Rattus norvegicus)
Mammalia Hoxc4 33
  • 97.47 (n)
mouse
(Mus musculus)
Mammalia Hoxc4 33 16 34
  • 97.35 (n)
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 76 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia hoxc4 33
  • 72.03 (n)
Str.7417 33
African clawed frog
(Xenopus laevis)
Amphibia hoxc6-A-prov 33
zebrafish
(Danio rerio)
Actinopterygii hoxc4a 33 34
  • 67.94 (n)
fruit fly
(Drosophila melanogaster)
Insecta Dfd 35 34
  • 81 (a)
Scr 35
  • 68 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 27 (a)
OneToMany
Species where no ortholog for HOXC4 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)
  • 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

ENSEMBL:
Gene Tree for HOXC4 (if available)
TreeFam:
Gene Tree for HOXC4 (if available)

Paralogs for HOXC4 Gene

(16) 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
rs1000059230 -- 54,014,986(+) TCAAA(A/G)TGGCT upstream-variant-2KB
rs1000137595 -- 54,028,295(+) TTACT(G/T)TCAAA intron-variant, upstream-variant-2KB
rs1000191769 -- 54,028,030(+) CTTCC(C/G)TTGGA intron-variant, upstream-variant-2KB
rs1000269134 -- 54,022,527(+) TCTCT(C/T)TTTGC intron-variant
rs1000358677 -- 54,044,367(+) CCTAA(A/C)AAATA intron-variant

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

Variant ID Type Subtype PubMed ID
esv2672088 CNV deletion 23128226
esv2759900 CNV gain+loss 17122850
nsv428282 CNV gain 18775914
nsv472156 CNV novel sequence insertion 20440878
nsv558998 CNV loss 21841781
nsv716 CNV insertion 18451855
nsv826379 CNV gain 20364138
nsv832418 CNV loss 17160897
nsv952182 CNV deletion 24416366

Variation tolerance for HOXC4 Gene

Residual Variation Intolerance Score: 33.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.62; 78.23% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HOXC4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HOXC4

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

Disorders for HOXC4 Gene

Relevant External Links for HOXC4

Genetic Association Database (GAD)
HOXC4
Human Genome Epidemiology (HuGE) Navigator
HOXC4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HOXC4

No disorders were found for HOXC4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas 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 LG … Sun KL (Zhonghua yi xue yi chuan xue za zhi = Zhonghua yixue yichuanxue zazhi = Chinese journal of medical genetics 2005) 3 22 45 60
  2. [Effect of human cytomegalovirus infection on the expression of hoxc4 and hoxc6 genes in the proliferation of lymphocytic progenitor cells]. (PMID: 19236766) Feng JQ … Chen SQ (Zhongguo shi yan xue ye xue za zhi 2009) 3 22 60
  3. Selective inhibition of class switching to IgG and IgE by recruitment of the HoxC4 and Oct-1 homeodomain proteins and Ku70/Ku86 to newly identified ATTT cis-elements. (PMID: 12672812) Schaffer A … Casali P (The Journal of biological chemistry 2003) 3 22 60
  4. Complete mutation analysis panel of the 39 human HOX genes. (PMID: 11857506) Kosaki K … Matsuo N (Teratology 2002) 3 4 60
  5. HOXC4, HOXC5, and HOXC6 expression in primary cutaneous lymphoid lesions. High expression of HOXC5 in anaplastic large-cell lymphomas. (PMID: 9327740) Bijl JJ … Meijer CJ (The American journal of pathology 1997) 3 22 60

Products for HOXC4 Gene

  • Addgene plasmids for HOXC4

Sources for HOXC4 Gene

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