Atlas of Genetics and Cytogenetics in Oncology and Haematology

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Taking over the Atlas
Dear Colleagues,
The Atlas, once more, is in great danger, and I will have to proceed to a collective economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas). I ask you herein if any Scientific Society (a Society of Cytogenetics, of Clinical Genetics, of Hematology, or a Cancer Society, or any other...), any University and/or Hospital, any Charity, or any database would be interested in taking over the Atlas, in whole or in part. If taking charge of the whole lot is too big, a consortium of various actors could be the solution (I am myself trying to find partners). Could you please spread the information, contact the relevant authorities, and find partners.
Survival of the Atlas will be critically dependant upon your ability to find solutions (and urgently!).
Kind regards.
Jean-Loup Huret
Donations are also welcome
If each casual visitor gives 3 Euros or Dollars, the Atlas is saved in a week !
If each professional gives 100 Euros or Dollars once a year (now), the Atlas is saved in 2 weeks !
Don't let the Atlas imminent demise
Note: we send fiscal receipts for donations equal or above 50 Euros or Dollars

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CCDC6 (coiled-coil domain containing 6)


Other namesD10S170
LocusID (NCBI) 8030
Location 10q21.2
Location_base_pair Starts at 61548506 and ends at 61666414 bp from pter ( according to hg19-Feb_2009)  [Mapping]


Description At least 8 exons spanning >76kb (gene incompletely characterized).
Pseudogene None reported


Description 585 amino acid leucine zipper protein
Expression Widely expressed
Function Unknown
Homology Weak but significant homology to the myosin superfamily

Implicated in

Entity Papillary thyroid carcinoma
Cytogenetics inv(10)(q11.2q21)
Hybrid/Mutated Gene H4-RET (also known as PTC1)
Abnormal Protein Contains the leucine zipper of H4 and the entire tyrosine kinase domain of RET. The fusion is a constitutively active tyrosine kinase.
Oncogenesis In transgenic mice the fusion gave rise to mammary adenocarcinomas and, less frequently, hyperplasia of sebaceous glands and rare benign skin tumors.
Entity negative chronic myeloid leukaemia / chronic myelomonocytic leukemia
Prognosis Too few cases reported but likely to be similar to CML
Cytogenetics t(5;10)(q33;q21.2)
Hybrid/Mutated Gene H4-PDGFRB. In a single case analyzed the translocation was found to be complex at the molecular level.
Abnormal Protein Contains the leucine zipper of H4 and the entire tyrosine kinase domain and transmembrane domain of PDGFRB



Other Leukemias implicated (Data extracted from papers in the Atlas)

Leukemias 11q23ChildAMLID1615 11q23ID1030

Other Solid tumors implicated (Data extracted from papers in the Atlas)

Solid Tumors AmeloblastomID5945 MedulloblastomaID5065 rhabID5004

External links

HGNC (Hugo)CCDC6   18782
Entrez_Gene (NCBI)CCDC6  8030  coiled-coil domain containing 6
GeneCards (Weizmann)CCDC6
Ensembl hg19 (Hinxton)ENSG00000108091 [Gene_View]  chr10:61548506-61666414 [Contig_View]  CCDC6 [Vega]
Ensembl hg38 (Hinxton)ENSG00000108091 [Gene_View]  chr10:61548506-61666414 [Contig_View]  CCDC6 [Vega]
ICGC DataPortalENSG00000108091
Genatlas (Paris)CCDC6
SOURCE (Princeton)CCDC6
Genomic and cartography
GoldenPath hg19 (UCSC)CCDC6  -     chr10:61548506-61666414 -  10q21.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)CCDC6  -     10q21.2   [Description]    (hg38-Dec_2013)
EnsemblCCDC6 - 10q21.2 [CytoView hg19]  CCDC6 - 10q21.2 [CytoView hg38]
Mapping of homologs : NCBICCDC6 [Mapview hg19]  CCDC6 [Mapview hg38]
OMIM188550   601985   
Gene and transcription
Genbank (Entrez)AA112388 AK024913 AK055515 AK056848 AK292593
RefSeq transcript (Entrez)NM_005436
RefSeq genomic (Entrez)NC_000010 NC_018921 NG_027819 NT_030059 NW_004929376
Consensus coding sequences : CCDS (NCBI)CCDC6
Cluster EST : UnigeneHs.591360 [ NCBI ]
CGAP (NCI)Hs.591360
Alternative Splicing : Fast-db (Paris)GSHG0004098
Alternative Splicing GalleryENSG00000108091
Gene ExpressionCCDC6 [ NCBI-GEO ]     CCDC6 [ SEEK ]   CCDC6 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ16204 (Uniprot)
NextProtQ16204  [Medical]
With graphics : InterProQ16204
Splice isoforms : SwissVarQ16204 (Swissvar)
Domains : Interpro (EBI)DUF2046   
Related proteins : CluSTrQ16204
Domain families : Pfam (Sanger)DUF2046 (PF09755)   
Domain families : Pfam (NCBI)pfam09755   
DMDM Disease mutations8030
Blocks (Seattle)Q16204
Human Protein AtlasENSG00000108091
Peptide AtlasQ16204
IPIIPI00807498   IPI00956015   
Protein Interaction databases
IntAct (EBI)Q16204
Ontologies - Pathways
Ontology : AmiGOstructural constituent of cytoskeleton  protein binding  cytoplasm  cytoskeleton  biological_process  SH3 domain binding  
Ontology : EGO-EBIstructural constituent of cytoskeleton  protein binding  cytoplasm  cytoskeleton  biological_process  SH3 domain binding  
Pathways : KEGGPathways in cancer    Thyroid cancer   
Protein Interaction DatabaseCCDC6
DoCM (Curated mutations)CCDC6
Wikipedia pathwaysCCDC6
Gene fusion - rearrangements
Rearrangement : COSMICCCDC6 [10q21.2]  -  RET [10q11.21]
Rearrangement : TICdbCCDC6 [10q21.2]  -  PDGFRB [1p13.3]
Rearrangement : TICdbCCDC6 [10q21.2]  -  RET [3p25.2]
Polymorphisms : SNP, variants
NCBI Variation ViewerCCDC6 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CCDC6
Exome Variant ServerCCDC6
Genetic variants : HAPMAPCCDC6
Genomic Variants (DGV)CCDC6 [DGVbeta]
ICGC Data PortalENSG00000108091 
Cancer Gene: CensusCCDC6 
Somatic Mutations in Cancer : COSMICCCDC6 
CONAN: Copy Number AnalysisCCDC6 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
DECIPHER (Syndromes)10:61548506-61666414
Mutations and Diseases : HGMDCCDC6
OMIM188550    601985   
NextProtQ16204 [Medical]
Disease Genetic AssociationCCDC6
Huge Navigator CCDC6 [HugePedia]  CCDC6 [HugeCancerGEM]
snp3D : Map Gene to Disease8030
DGIdb (Drug Gene Interaction db)CCDC6
General knowledge
Homologs : HomoloGeneCCDC6
Homology/Alignments : Family Browser (UCSC)CCDC6
Phylogenetic Trees/Animal Genes : TreeFamCCDC6
Chemical/Protein Interactions : CTD8030
Chemical/Pharm GKB GenePA134904022
Clinical trialCCDC6
Cancer Resource (Charite)ENSG00000108091
Other databases
Other database
PubMed51 Pubmed reference(s) in Entrez


Characterization of an inversion on the long arm of chromosome 10 juxtaposing D10S170 and RET and creating the oncogenic sequence RET/PTC.
Pierotti MA, Santoro M, Jenkins RB, Sozzi G, Bongarzone I, Grieco M, Monzini N, Miozzo M, Herrmann MA, Fusco A
Proceedings of the National Academy of Sciences of the United States of America. 1992 ; 89 (5) : 1616-1620.
PMID 1542652
Cloning and characterization of H4 (D10S170), a gene involved in RET rearrangements in vivo.
Grieco M, Cerrato A, Santoro M, Fusco A, Melillo RM, Vecchio G
Oncogene. 1994 ; 9 (9) : 2531-2535.
PMID 8058316
Development of mammary and cutaneous gland tumors in transgenic mice carrying the RET/PTC1 oncogene.
Portella G, Salvatore D, Botti G, Cerrato A, Zhang L, Mineo A, Chiappetta G, Santelli G, Pozzi L, Vecchio G, Fusco A, Santoro M
Oncogene. 1996 ; 13 (9) : 2021-2026.
PMID 8934550
Leucine zipper-mediated dimerization is essential for the PTC1 oncogenic activity.
Tong Q, Xing S, Jhiang SM
The Journal of biological chemistry. 1997 ; 272 (14) : 9043-9047.
PMID 9083029
Fusion of H4/D10S170 to the platelet-derived growth factor receptor beta in BCR-ABL-negative myeloproliferative disorders with a t(5;10)(q33;q21).
Kulkarni S, Heath C, Parker S, Chase A, Iqbal S, Pocock CF, Kaeda J, Cwynarski K, Goldman JM, Cross NC
Cancer research. 2000 ; 60 (13) : 3592-3598.
PMID 10910073
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI


Written06-2001Nick.C P Cross


This paper should be referenced as such :
Cross, NCP
CCDC6 (coiled-coil domain containing 6)
Atlas Genet Cytogenet Oncol Haematol. 2001;5(3):186-187.
Free journal version : [ pdf ]   [ DOI ]

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indexed on : Sat Mar 28 12:39:46 CET 2015

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