Atlas of Genetics and Cytogenetics in Oncology and Haematology


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C9orf78 (chromosome 9 open reading frame 78)

Identity

Other namesHCA59
HSPC220
bA409K20.3
HGNC (Hugo) C9orf78
LocusID (NCBI) 51759
Atlas_Id 895
Location 9q34.11  [Link to chromosome band 9q34]
Location_base_pair Starts at 132589564 and ends at 132597572 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
C9orf78 (9q34.11) / SRSF11 (1p31.1)PHC2 (1p35.1) / C9orf78 (9q34.11)SNX27 (1q21.3) / C9orf78 (9q34.11)

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)C9orf78   24932
Cards
Entrez_Gene (NCBI)C9orf78  51759  chromosome 9 open reading frame 78
AliasesHCA59; HSPC220; bA409K20.3
GeneCards (Weizmann)C9orf78
Ensembl hg19 (Hinxton)ENSG00000136819 [Gene_View]  chr9:132589564-132597572 [Contig_View]  C9orf78 [Vega]
Ensembl hg38 (Hinxton)ENSG00000136819 [Gene_View]  chr9:132589564-132597572 [Contig_View]  C9orf78 [Vega]
ICGC DataPortalENSG00000136819
TCGA cBioPortalC9orf78
AceView (NCBI)C9orf78
Genatlas (Paris)C9orf78
WikiGenes51759
SOURCE (Princeton)C9orf78
Genomic and cartography
GoldenPath hg19 (UCSC)C9orf78  -     chr9:132589564-132597572 -  9q34.11   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)C9orf78  -     9q34.11   [Description]    (hg38-Dec_2013)
EnsemblC9orf78 - 9q34.11 [CytoView hg19]  C9orf78 - 9q34.11 [CytoView hg38]
Mapping of homologs : NCBIC9orf78 [Mapview hg19]  C9orf78 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AF151054 AF218421 AK057004 AK096971 AK097577
RefSeq transcript (Entrez)NM_016520
RefSeq genomic (Entrez)NC_000009 NC_018920 NT_008470 NW_004929366
Consensus coding sequences : CCDS (NCBI)C9orf78
Cluster EST : UnigeneHs.278429 [ NCBI ]
CGAP (NCI)Hs.278429
Alternative Splicing GalleryENSG00000136819
Gene ExpressionC9orf78 [ NCBI-GEO ]   C9orf78 [ EBI - ARRAY_EXPRESS ]   C9orf78 [ SEEK ]   C9orf78 [ MEM ]
Gene Expression Viewer (FireBrowse)C9orf78 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51759
GTEX Portal (Tissue expression)C9orf78
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NZ63 (Uniprot)
NextProtQ9NZ63  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NZ63
Splice isoforms : SwissVarQ9NZ63 (Swissvar)
PhosPhoSitePlusQ9NZ63
Domains : Interpro (EBI)Hep_59   
Domain families : Pfam (Sanger)Hep_59 (PF07052)   
Domain families : Pfam (NCBI)pfam07052   
DMDM Disease mutations51759
Blocks (Seattle)C9orf78
SuperfamilyQ9NZ63
Human Protein AtlasENSG00000136819
Peptide AtlasQ9NZ63
HPRD10803
IPIIPI00550191   IPI00433576   IPI00844166   
Protein Interaction databases
DIP (DOE-UCLA)Q9NZ63
IntAct (EBI)Q9NZ63
FunCoupENSG00000136819
BioGRIDC9orf78
STRING (EMBL)C9orf78
ZODIACC9orf78
Ontologies - Pathways
QuickGOQ9NZ63
Ontology : AmiGOprotein binding  nucleoplasm  cytoplasm  
Ontology : EGO-EBIprotein binding  nucleoplasm  cytoplasm  
NDEx NetworkC9orf78
Atlas of Cancer Signalling NetworkC9orf78
Wikipedia pathwaysC9orf78
Orthology - Evolution
OrthoDB51759
GeneTree (enSembl)ENSG00000136819
Phylogenetic Trees/Animal Genes : TreeFamC9orf78
Homologs : HomoloGeneC9orf78
Homology/Alignments : Family Browser (UCSC)C9orf78
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerC9orf78 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)C9orf78
dbVarC9orf78
ClinVarC9orf78
1000_GenomesC9orf78 
Exome Variant ServerC9orf78
ExAC (Exome Aggregation Consortium)C9orf78 (select the gene name)
Genetic variants : HAPMAP51759
Genomic Variants (DGV)C9orf78 [DGVbeta]
Mutations
ICGC Data PortalC9orf78 
TCGA Data PortalC9orf78 
Broad Tumor PortalC9orf78
OASIS PortalC9orf78 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICC9orf78 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch C9orf78
DgiDB (Drug Gene Interaction Database)C9orf78
DoCM (Curated mutations)C9orf78 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)C9orf78 (select a term)
intoGenC9orf78
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)9:132589564-132597572  ENSG00000136819
CONAN: Copy Number AnalysisC9orf78 
Mutations and Diseases : HGMDC9orf78
OMIM
MedgenC9orf78
Genetic Testing Registry C9orf78
NextProtQ9NZ63 [Medical]
TSGene51759
GENETestsC9orf78
Huge Navigator C9orf78 [HugePedia]
snp3D : Map Gene to Disease51759
BioCentury BCIQC9orf78
ClinGenC9orf78
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51759
Chemical/Pharm GKB GenePA134929438
Clinical trialC9orf78
Miscellaneous
canSAR (ICR)C9orf78 (select the gene name)
Probes
Litterature
PubMed25 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineC9orf78
EVEXC9orf78
GoPubMedC9orf78
iHOPC9orf78
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 19 18:39:38 CEST 2016

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