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CCDC88B (coiled-coil domain containing 88B)

Identity

Alias_namesCCDC88
coiled-coil domain containing 88
Alias_symbol (synonym)FLJ37970
BRLZ
HkRP3
FLJ00354
GIPIE
Other aliasHKRP3
gipie
HGNC (Hugo) CCDC88B
LocusID (NCBI) 283234
Atlas_Id 56440
Location 11q13.1  [Link to chromosome band 11q13]
Location_base_pair Starts at 64340218 and ends at 64357534 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)
AMOTL1 (11q21) / CCDC88B (11q13.1)CCDC88B (11q13.1) / ADGRE5 (19p13.12)CCDC88B (11q13.1) / AKR1C1 (10p15.1)
PRKCI (3q26.2) / CCDC88B (11q13.1)

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 3 ]
  t(10;11)(p15;q13) CCDC88B/AKR1C1
RPS6KA4/CCDC88B (11q13)
t(11;11)(q13;q21) AMOTL1/CCDC88B


External links

Nomenclature
HGNC (Hugo)CCDC88B   26757
Cards
Entrez_Gene (NCBI)CCDC88B  283234  coiled-coil domain containing 88B
AliasesBRLZ; CCDC88; HKRP3; gipie
GeneCards (Weizmann)CCDC88B
Ensembl hg19 (Hinxton)ENSG00000168071 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000168071 [Gene_View]  ENSG00000168071 [Sequence]  chr11:64340218-64357534 [Contig_View]  CCDC88B [Vega]
ICGC DataPortalENSG00000168071
TCGA cBioPortalCCDC88B
AceView (NCBI)CCDC88B
Genatlas (Paris)CCDC88B
WikiGenes283234
SOURCE (Princeton)CCDC88B
Genetics Home Reference (NIH)CCDC88B
Genomic and cartography
GoldenPath hg38 (UCSC)CCDC88B  -     chr11:64340218-64357534 +  11q13.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CCDC88B  -     11q13.1   [Description]    (hg19-Feb_2009)
CCDC88B - 11q13.1 [CytoView hg19]  CCDC88B - 11q13.1 [CytoView hg38]
Mapping of homologs : NCBICCDC88B [Mapview hg19]  CCDC88B [Mapview hg38]
OMIM611205   
Gene and transcription
Genbank (Entrez)AK074126 AK090436 AK095289 AK126728 AL136799
RefSeq transcript (Entrez)NM_032251
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CCDC88B
Cluster EST : UnigeneHs.98564 [ NCBI ]
CGAP (NCI)Hs.98564
Alternative Splicing GalleryENSG00000168071
Gene ExpressionCCDC88B [ NCBI-GEO ]   CCDC88B [ EBI - ARRAY_EXPRESS ]   CCDC88B [ SEEK ]   CCDC88B [ MEM ]
Gene Expression Viewer (FireBrowse)CCDC88B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)283234
GTEX Portal (Tissue expression)CCDC88B
Human Protein AtlasENSG00000168071-CCDC88B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtA6NC98   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtA6NC98  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProA6NC98
Splice isoforms : SwissVarA6NC98
PhosPhoSitePlusA6NC98
Domains : Interpro (EBI)CH_dom_sf    Hook-like_fam   
Domain families : Pfam (Sanger)HOOK (PF05622)   
Domain families : Pfam (NCBI)pfam05622   
Conserved Domain (NCBI)CCDC88B
DMDM Disease mutations283234
Blocks (Seattle)CCDC88B
SuperfamilyA6NC98
Human Protein Atlas [tissue]ENSG00000168071-CCDC88B [tissue]
Peptide AtlasA6NC98
HPRD10986
IPIIPI00885054   IPI00398837   IPI00395716   IPI00884966   IPI00031029   IPI00383057   IPI00152758   IPI00384080   
Protein Interaction databases
DIP (DOE-UCLA)A6NC98
IntAct (EBI)A6NC98
FunCoupENSG00000168071
BioGRIDCCDC88B
STRING (EMBL)CCDC88B
ZODIACCCDC88B
Ontologies - Pathways
QuickGOA6NC98
Ontology : AmiGOpositive regulation of cytokine production  cytoplasm  endoplasmic reticulum  Golgi apparatus  centrosome  microtubule binding  membrane  cytoskeleton-dependent intracellular transport  cytoplasmic microtubule organization  positive regulation of T cell proliferation  defense response to protozoan  positive regulation of T cell activation  dynein light intermediate chain binding  
Ontology : EGO-EBIpositive regulation of cytokine production  cytoplasm  endoplasmic reticulum  Golgi apparatus  centrosome  microtubule binding  membrane  cytoskeleton-dependent intracellular transport  cytoplasmic microtubule organization  positive regulation of T cell proliferation  defense response to protozoan  positive regulation of T cell activation  dynein light intermediate chain binding  
NDEx NetworkCCDC88B
Atlas of Cancer Signalling NetworkCCDC88B
Wikipedia pathwaysCCDC88B
Orthology - Evolution
OrthoDB283234
GeneTree (enSembl)ENSG00000168071
Phylogenetic Trees/Animal Genes : TreeFamCCDC88B
HOGENOMA6NC98
Homologs : HomoloGeneCCDC88B
Homology/Alignments : Family Browser (UCSC)CCDC88B
Gene fusions - Rearrangements
Fusion : QuiverCCDC88B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCCDC88B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CCDC88B
dbVarCCDC88B
ClinVarCCDC88B
1000_GenomesCCDC88B 
Exome Variant ServerCCDC88B
ExAC (Exome Aggregation Consortium)ENSG00000168071
GNOMAD BrowserENSG00000168071
Varsome BrowserCCDC88B
Genetic variants : HAPMAP283234
Genomic Variants (DGV)CCDC88B [DGVbeta]
DECIPHERCCDC88B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCCDC88B 
Mutations
ICGC Data PortalCCDC88B 
TCGA Data PortalCCDC88B 
Broad Tumor PortalCCDC88B
OASIS PortalCCDC88B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCCDC88B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCCDC88B
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
BioMutasearch CCDC88B
DgiDB (Drug Gene Interaction Database)CCDC88B
DoCM (Curated mutations)CCDC88B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CCDC88B (select a term)
intoGenCCDC88B
Cancer3DCCDC88B(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM611205   
Orphanet
DisGeNETCCDC88B
MedgenCCDC88B
Genetic Testing Registry CCDC88B
NextProtA6NC98 [Medical]
TSGene283234
GENETestsCCDC88B
Target ValidationCCDC88B
Huge Navigator CCDC88B [HugePedia]
snp3D : Map Gene to Disease283234
BioCentury BCIQCCDC88B
ClinGenCCDC88B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD283234
Chemical/Pharm GKB GenePA162381820
Clinical trialCCDC88B
Miscellaneous
canSAR (ICR)CCDC88B (select the gene name)
DataMed IndexCCDC88B
Probes
Litterature
PubMed16 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCCDC88B
EVEXCCDC88B
GoPubMedCCDC88B
iHOPCCDC88B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Mar 21 15:39:19 CET 2019

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