Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

PHYHD1 (phytanoyl-CoA dioxygenase domain containing 1)

Identity

Alias_symbol (synonym)MGC16638
Other alias-
HGNC (Hugo) PHYHD1
LocusID (NCBI) 254295
Atlas_Id 71897
Location 9q34.11  [Link to chromosome band 9q34]
Location_base_pair Starts at 128920895 and ends at 128942041 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
NUP188 (9q34.11) / PHYHD1 (9q34.11)PHYHD1 (9q34.11) / LRRC8A (9q34.11)PHYHD1 (9q34.11) / ZER1 (9q34.11)
PHYHD1 LRRC8APHYHD1 ZER1

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)PHYHD1   23396
Cards
Entrez_Gene (NCBI)PHYHD1  254295  phytanoyl-CoA dioxygenase domain containing 1
Aliases
GeneCards (Weizmann)PHYHD1
Ensembl hg19 (Hinxton)ENSG00000175287 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000175287 [Gene_View]  chr9:128920895-128942041 [Contig_View]  PHYHD1 [Vega]
ICGC DataPortalENSG00000175287
TCGA cBioPortalPHYHD1
AceView (NCBI)PHYHD1
Genatlas (Paris)PHYHD1
WikiGenes254295
SOURCE (Princeton)PHYHD1
Genetics Home Reference (NIH)PHYHD1
Genomic and cartography
GoldenPath hg38 (UCSC)PHYHD1  -     chr9:128920895-128942041 +  9q34.11   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PHYHD1  -     9q34.11   [Description]    (hg19-Feb_2009)
EnsemblPHYHD1 - 9q34.11 [CytoView hg19]  PHYHD1 - 9q34.11 [CytoView hg38]
Mapping of homologs : NCBIPHYHD1 [Mapview hg19]  PHYHD1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK054994 AK095000 BC009373 BC051300 BC053853
RefSeq transcript (Entrez)NM_001100876 NM_001100877 NM_174933
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PHYHD1
Cluster EST : UnigeneHs.709447 [ NCBI ]
CGAP (NCI)Hs.709447
Alternative Splicing GalleryENSG00000175287
Gene ExpressionPHYHD1 [ NCBI-GEO ]   PHYHD1 [ EBI - ARRAY_EXPRESS ]   PHYHD1 [ SEEK ]   PHYHD1 [ MEM ]
Gene Expression Viewer (FireBrowse)PHYHD1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)254295
GTEX Portal (Tissue expression)PHYHD1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ5SRE7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ5SRE7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ5SRE7
Splice isoforms : SwissVarQ5SRE7
PhosPhoSitePlusQ5SRE7
Domains : Interpro (EBI)Phytyl_CoA_dOase   
Domain families : Pfam (Sanger)PhyH (PF05721)   
Domain families : Pfam (NCBI)pfam05721   
Conserved Domain (NCBI)PHYHD1
DMDM Disease mutations254295
Blocks (Seattle)PHYHD1
PDB (SRS)2OPW    3OBZ   
PDB (PDBSum)2OPW    3OBZ   
PDB (IMB)2OPW    3OBZ   
PDB (RSDB)2OPW    3OBZ   
Structural Biology KnowledgeBase2OPW    3OBZ   
SCOP (Structural Classification of Proteins)2OPW    3OBZ   
CATH (Classification of proteins structures)2OPW    3OBZ   
SuperfamilyQ5SRE7
Human Protein AtlasENSG00000175287
Peptide AtlasQ5SRE7
HPRD17850
IPIIPI00413674   IPI00385575   IPI00062598   IPI00917144   IPI00646525   IPI00853155   IPI00853279   IPI00893684   IPI00893803   IPI00894484   IPI00893554   
Protein Interaction databases
DIP (DOE-UCLA)Q5SRE7
IntAct (EBI)Q5SRE7
FunCoupENSG00000175287
BioGRIDPHYHD1
STRING (EMBL)PHYHD1
ZODIACPHYHD1
Ontologies - Pathways
QuickGOQ5SRE7
Ontology : AmiGOprotein binding  metal ion binding  dioxygenase activity  oxidation-reduction process  
Ontology : EGO-EBIprotein binding  metal ion binding  dioxygenase activity  oxidation-reduction process  
NDEx NetworkPHYHD1
Atlas of Cancer Signalling NetworkPHYHD1
Wikipedia pathwaysPHYHD1
Orthology - Evolution
OrthoDB254295
GeneTree (enSembl)ENSG00000175287
Phylogenetic Trees/Animal Genes : TreeFamPHYHD1
HOVERGENQ5SRE7
HOGENOMQ5SRE7
Homologs : HomoloGenePHYHD1
Homology/Alignments : Family Browser (UCSC)PHYHD1
Gene fusions - Rearrangements
Fusion: TCGAPHYHD1 LRRC8A
Fusion: TCGAPHYHD1 ZER1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPHYHD1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PHYHD1
dbVarPHYHD1
ClinVarPHYHD1
1000_GenomesPHYHD1 
Exome Variant ServerPHYHD1
ExAC (Exome Aggregation Consortium)PHYHD1 (select the gene name)
Genetic variants : HAPMAP254295
Genomic Variants (DGV)PHYHD1 [DGVbeta]
DECIPHERPHYHD1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPHYHD1 
Mutations
ICGC Data PortalPHYHD1 
TCGA Data PortalPHYHD1 
Broad Tumor PortalPHYHD1
OASIS PortalPHYHD1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPHYHD1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPHYHD1
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 PHYHD1
DgiDB (Drug Gene Interaction Database)PHYHD1
DoCM (Curated mutations)PHYHD1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PHYHD1 (select a term)
intoGenPHYHD1
Cancer3DPHYHD1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenPHYHD1
Genetic Testing Registry PHYHD1
NextProtQ5SRE7 [Medical]
TSGene254295
GENETestsPHYHD1
Target ValidationPHYHD1
Huge Navigator PHYHD1 [HugePedia]
snp3D : Map Gene to Disease254295
BioCentury BCIQPHYHD1
ClinGenPHYHD1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD254295
Chemical/Pharm GKB GenePA134959674
Clinical trialPHYHD1
Miscellaneous
canSAR (ICR)PHYHD1 (select the gene name)
Probes
Litterature
PubMed9 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePHYHD1
EVEXPHYHD1
GoPubMedPHYHD1
iHOPPHYHD1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Sep 18 13:34:30 CEST 2017

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.