Atlas of Genetics and Cytogenetics in Oncology and Haematology


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HOXC5 (homeobox C5)

Identity

Alias (NCBI)CP11
HOX3
HOX3D
HGNC (Hugo) HOXC5
HGNC Previous nameHOX3D
 HOX3
HGNC Previous namehomeo box C5
LocusID (NCBI) 3222
Atlas_Id 57869
Location 12q13.13  [Link to chromosome band 12q13]
Location_base_pair Starts at 54033048 and ends at 54035360 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)HOXC5   5127
Cards
Entrez_Gene (NCBI)HOXC5  3222  homeobox C5
AliasesCP11; HOX3; HOX3D
GeneCards (Weizmann)HOXC5
Ensembl hg19 (Hinxton) [Gene_View]
Ensembl hg38 (Hinxton) [Gene_View]   [Sequence]  chr12:54033048-54035360 [Contig_View]  HOXC5 [Vega]
TCGA cBioPortalHOXC5
AceView (NCBI)HOXC5
Genatlas (Paris)HOXC5
WikiGenes3222
SOURCE (Princeton)HOXC5
Genetics Home Reference (NIH)HOXC5
Genomic and cartography
GoldenPath hg38 (UCSC)HOXC5  -     chr12:54033048-54035360 +  12q13.13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)HOXC5  -     12q13.13   [Description]    (hg19-Feb_2009)
GoldenPathHOXC5 - 12q13.13 [CytoView hg19]  HOXC5 - 12q13.13 [CytoView hg38]
genome Data Viewer NCBIHOXC5 [Mapview hg19]  
OMIM142973   
Gene and transcription
Genbank (Entrez)BC034922 BC044635 BE255323 BM786543 CN309383
RefSeq transcript (Entrez)NM_018953
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)HOXC5
Gene ExpressionHOXC5 [ NCBI-GEO ]   HOXC5 [ EBI - ARRAY_EXPRESS ]   HOXC5 [ SEEK ]   HOXC5 [ MEM ]
Gene Expression Viewer (FireBrowse)HOXC5 [ Firebrowse - Broad ]
GenevisibleExpression of HOXC5 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3222
GTEX Portal (Tissue expression)HOXC5
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ00444   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ00444  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ00444
Splice isoforms : SwissVarQ00444
PhosPhoSitePlusQ00444
Domaine pattern : Prosite (Expaxy)ANTENNAPEDIA (PS00032)    HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)   
Domains : Interpro (EBI)Homeobox-like_sf    Homeobox_antennapedia    Homeobox_Antennapedia_CS    Homeobox_CS    Homeobox_dom    Homeobox_metazoa   
Domain families : Pfam (Sanger)Homeodomain (PF00046)   
Domain families : Pfam (NCBI)pfam00046   
Domain families : Smart (EMBL)HOX (SM00389)  
Conserved Domain (NCBI)HOXC5
DMDM Disease mutations3222
Blocks (Seattle)HOXC5
SuperfamilyQ00444
Peptide AtlasQ00444
IPIIPI00022893   
Protein Interaction databases
DIP (DOE-UCLA)Q00444
IntAct (EBI)Q00444
BioGRIDHOXC5
STRING (EMBL)HOXC5
ZODIACHOXC5
Ontologies - Pathways
QuickGOQ00444
Ontology : AmiGOnuclear chromatin  RNA polymerase II proximal promoter sequence-specific DNA binding  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity  nucleus  nucleoplasm  regulation of transcription by RNA polymerase II  anterior/posterior pattern specification  cell junction  embryonic skeletal system development  
Ontology : EGO-EBInuclear chromatin  RNA polymerase II proximal promoter sequence-specific DNA binding  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity  nucleus  nucleoplasm  regulation of transcription by RNA polymerase II  anterior/posterior pattern specification  cell junction  embryonic skeletal system development  
NDEx NetworkHOXC5
Atlas of Cancer Signalling NetworkHOXC5
Wikipedia pathwaysHOXC5
Orthology - Evolution
OrthoDB3222
Phylogenetic Trees/Animal Genes : TreeFamHOXC5
HOGENOMQ00444
Homologs : HomoloGeneHOXC5
Homology/Alignments : Family Browser (UCSC)HOXC5
Gene fusions - Rearrangements
Fusion : QuiverHOXC5
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHOXC5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HOXC5
dbVarHOXC5
ClinVarHOXC5
1000_GenomesHOXC5 
Exome Variant ServerHOXC5
Varsome BrowserHOXC5
Genetic variants : HAPMAP3222
Genomic Variants (DGV)HOXC5 [DGVbeta]
DECIPHERHOXC5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisHOXC5 
Mutations
ICGC Data PortalHOXC5 
TCGA Data PortalHOXC5 
Broad Tumor PortalHOXC5
OASIS PortalHOXC5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICHOXC5  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DHOXC5
Mutations and Diseases : HGMDHOXC5
BioMutasearch HOXC5
DgiDB (Drug Gene Interaction Database)HOXC5
DoCM (Curated mutations)HOXC5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HOXC5 (select a term)
intoGenHOXC5
Cancer3DHOXC5(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM142973   
Orphanet
DisGeNETHOXC5
MedgenHOXC5
Genetic Testing Registry HOXC5
NextProtQ00444 [Medical]
TSGene3222
GENETestsHOXC5
Target ValidationHOXC5
Huge Navigator HOXC5 [HugePedia]
snp3D : Map Gene to Disease3222
BioCentury BCIQHOXC5
ClinGenHOXC5
Clinical trials, drugs, therapy
Protein Interactions : CTD3222
Pharm GKB GenePA29402
Clinical trialHOXC5
Miscellaneous
canSAR (ICR)HOXC5 (select the gene name)
HarmonizomeHOXC5
DataMed IndexHOXC5
Probes
Litterature
PubMed21 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHOXC5
EVEXHOXC5
GoPubMedHOXC5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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indexed on : Thu Jul 16 15:16:56 CEST 2020

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