TTC39A (tetratricopeptide repeat domain 39A)

1. Identity

Alias_names
General Information
chromosome 1 open reading frame 34
Alias_symbol (synonym)KIAA0452
DEME-6
Other alias
HGNC (Hugo) TTC39A
LocusID (NCBI) 22996
Atlas_Id 75291
Location 1p32.3  [Link to chromosome band 1p32]
Location_base_pair Starts at 51287258 and ends at 51322268 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)
SERINC5 (5q14.1) / TTC39A (1p32.3)TTC39A (1p32.3) / CRISP1 (6p12.3)TTC39A (1p32.3) / PHGDH (1p12)
TTC39A CRISP1TTC39A PHGDH

2. DNA/RNA

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 3 ]
  t(1;1)(p12;p32) TTC39A/PHGDH
t(1;5)(p32;q14) SERINC5/TTC39A
t(1;6)(p32;p12) TTC39A/CRISP1

3. External links

Nomenclature
HGNC (Hugo)TTC39A   18657
Cards
Entrez_Gene (NCBI)TTC39A  22996  tetratricopeptide repeat domain 39A
AliasesC1orf34; DEME-6
GeneCards (Weizmann)TTC39A
Ensembl hg19 (Hinxton)ENSG00000085831 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000085831 [Gene_View] &nbspENSG00000085831 [Sequence]  chr1:51287258-51322268 [Contig_View]  TTC39A [Vega]
ICGC DataPortalENSG00000085831
TCGA cBioPortalTTC39A
AceView (NCBI)TTC39A
Genatlas (Paris)TTC39A
WikiGenes22996
SOURCE (Princeton)TTC39A
Genetics Home Reference (NIH)TTC39A
Genomic and cartography
GoldenPath hg38 (UCSC)TTC39A  -     chr1:51287258-51322268 -  1p32.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TTC39A  -     1p32.3   [Description]    (hg19-Feb_2009)
EnsemblTTC39A - 1p32.3 [CytoView hg19]  TTC39A - 1p32.3 [CytoView hg38]
Mapping of homologs : NCBITTC39A [Mapview hg19]  TTC39A [Mapview hg38]
Gene and transcription
Genbank (Entrez)AB007921 AF007170 AK000220 AK298019 AK301587
RefSeq transcript (Entrez)NM_001080494 NM_001144832 NM_001297662 NM_001297663 NM_001297664 NM_001297665 NM_001297666 NM_001297667
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)TTC39A
Cluster EST : UnigeneHs.112949 [ NCBI ]
CGAP (NCI)Hs.112949
Alternative Splicing GalleryENSG00000085831
Gene ExpressionTTC39A [ NCBI-GEO ]   TTC39A [ EBI - ARRAY_EXPRESS ]   TTC39A [ SEEK ]   TTC39A [ MEM ]
Gene Expression Viewer (FireBrowse)TTC39A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets] &nbsp [Normal Tissue Atlas] &nbsp[carcinoma Classsification] &nbsp[NCI60]
GenevestigatorExpression in : [tissues] &nbsp[cell-lines] &nbsp[cancer] &nbsp[perturbations] &nbsp
BioGPS (Tissue expression)22996
GTEX Portal (Tissue expression)TTC39A
Human Protein AtlasENSG00000085831-TTC39A [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ5SRH9   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ5SRH9  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ5SRH9
Splice isoforms : SwissVarQ5SRH9
PhosPhoSitePlusQ5SRH9
Domains : Interpro (EBI)OMP_Iml2/TPR_39    TPR-like_helical_dom    TPR_repeat    TTC39A   
Domain families : Pfam (Sanger)DUF3808 (PF10300)   
Domain families : Pfam (NCBI)pfam10300   
Domain families : Smart (EMBL)TPR (SM00028)  
Conserved Domain (NCBI)TTC39A
DMDM Disease mutations22996
Blocks (Seattle)TTC39A
SuperfamilyQ5SRH9
Human Protein Atlas [tissue]ENSG00000085831-TTC39A [tissue]
Peptide AtlasQ5SRH9
IPIIPI00815840   IPI00942392   IPI00023920   IPI00741189   IPI00978394   IPI00643926   IPI00974046   IPI00642013   IPI00642500   IPI01009728   IPI00981449   IPI01012117   IPI00872657   IPI01014434   IPI00980121   
Protein Interaction databases
DIP (DOE-UCLA)Q5SRH9
IntAct (EBI)Q5SRH9
FunCoupENSG00000085831
BioGRIDTTC39A
STRING (EMBL)TTC39A
ZODIACTTC39A
Ontologies - Pathways
QuickGOQ5SRH9
Ontology : AmiGOmolecular_function  cellular_component  biological_process  
Ontology : EGO-EBImolecular_function  cellular_component  biological_process  
NDEx NetworkTTC39A
Atlas of Cancer Signalling NetworkTTC39A
Wikipedia pathwaysTTC39A
Orthology - Evolution
OrthoDB22996
GeneTree (enSembl)ENSG00000085831
Phylogenetic Trees/Animal Genes : TreeFamTTC39A
HOVERGENQ5SRH9
HOGENOMQ5SRH9
Homologs : HomoloGeneTTC39A
Homology/Alignments : Family Browser (UCSC)TTC39A
Gene fusions - Rearrangements
Fusion PortalTTC39A CRISP1
Fusion PortalTTC39A PHGDH
Fusion : QuiverTTC39A
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTTC39A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TTC39A
dbVarTTC39A
ClinVarTTC39A
1000_GenomesTTC39A 
Exome Variant ServerTTC39A
ExAC (Exome Aggregation Consortium)ENSG00000085831
GNOMAD BrowserENSG00000085831
Varsome BrowserTTC39A
Genetic variants : HAPMAP22996
Genomic Variants (DGV)TTC39A [DGVbeta]
DECIPHERTTC39A [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTTC39A 
Mutations
ICGC Data PortalTTC39A 
TCGA Data PortalTTC39A 
Broad Tumor PortalTTC39A
OASIS PortalTTC39A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTTC39A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTTC39A
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch TTC39A
DgiDB (Drug Gene Interaction Database)TTC39A
DoCM (Curated mutations)TTC39A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TTC39A (select a term)
intoGenTTC39A
Cancer3DTTC39A(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETTTC39A
MedgenTTC39A
Genetic Testing Registry TTC39A
NextProtQ5SRH9 [Medical]
TSGene22996
GENETestsTTC39A
Target ValidationTTC39A
Huge Navigator TTC39A [HugePedia]
snp3D : Map Gene to Disease22996
BioCentury BCIQTTC39A
ClinGenTTC39A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD22996
Chemical/Pharm GKB GenePA162407260
Clinical trialTTC39A
Miscellaneous
canSAR (ICR)TTC39A (select the gene name)
Probes
Litterature
PubMed4 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTTC39A
EVEXTTC39A
GoPubMedTTC39A
iHOPTTC39A
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 : Mon Jul 30 14:37:05 CEST 2018

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