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

PKHD1 (PKHD1 ciliary IPT domain containing fibrocystin/polyductin)

Identity

Alias (NCBI)ARPKD
FCYT
FPC
PKD4
TIGM1
HGNC (Hugo) PKHD1
HGNC Alias symbARPKD
FCYT
FPC
HGNC Alias nametigmin
 polyductin
 fibrocystin
 fibrocystin/polyductin complex
HGNC Previous nameTIGM1
HGNC Previous nameTIG multiple domains 1
 polycystic kidney and hepatic disease 1 (autosomal recessive)
 PKHD1, fibrocystin/polyductin
LocusID (NCBI) 5314
Atlas_Id 52174
Location 6p12.3  [Link to chromosome band 6p12]
Location_base_pair Starts at 51720849 and ends at 52087613 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)
DHRS7B (17p11.2) / PKHD1 (6p12.3)PKHD1 (6p12.3) / RCAN2 (6p21.1)PKHD1 6p12.3 / RCAN2 6p21.1

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

 



External links

 

Nomenclature
HGNC (Hugo)PKHD1   9016
Cards
Entrez_Gene (NCBI)PKHD1    PKHD1 ciliary IPT domain containing fibrocystin/polyductin
AliasesARPKD; FCYT; FPC; PKD4; 
TIGM1
GeneCards (Weizmann)PKHD1
Ensembl hg19 (Hinxton)ENSG00000170927 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000170927 [Gene_View]  ENSG00000170927 [Sequence]  chr6:51720849-52087613 [Contig_View]  PKHD1 [Vega]
ICGC DataPortalENSG00000170927
TCGA cBioPortalPKHD1
AceView (NCBI)PKHD1
Genatlas (Paris)PKHD1
SOURCE (Princeton)PKHD1
Genetics Home Reference (NIH)PKHD1
Genomic and cartography
GoldenPath hg38 (UCSC)PKHD1  -     chr6:51720849-52087613 -  6p12.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PKHD1  -     6p12.3   [Description]    (hg19-Feb_2009)
GoldenPathPKHD1 - 6p12.3 [CytoView hg19]  PKHD1 - 6p12.3 [CytoView hg38]
ImmunoBaseENSG00000170927
Genome Data Viewer NCBIPKHD1 [Mapview hg19]  
OMIM263200   606702   
Gene and transcription
Genbank (Entrez)AF480064 AK091971 AK128031 AY074797 AY092083
RefSeq transcript (Entrez)NM_138694 NM_170724
Consensus coding sequences : CCDS (NCBI)PKHD1
Gene ExpressionPKHD1 [ NCBI-GEO ]   PKHD1 [ EBI - ARRAY_EXPRESS ]   PKHD1 [ SEEK ]   PKHD1 [ MEM ]
Gene Expression Viewer (FireBrowse)PKHD1 [ Firebrowse - Broad ]
GenevisibleExpression of PKHD1 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5314
GTEX Portal (Tissue expression)PKHD1
Human Protein AtlasENSG00000170927-PKHD1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP08F94   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP08F94  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP08F94
PhosPhoSitePlusP08F94
Domaine pattern : Prosite (Expaxy)G8 (PS51484)    PA14 (PS51820)   
Domains : Interpro (EBI)Beta_helix    G8_domain    Ig-like_fold    Ig_E-set    IPT_dom    PA14/GLEYA    PbH1    Pectin_lyas_fold    Pectin_lyase_fold/virulence    PKHD1   
Domain families : Pfam (Sanger)Beta_helix (PF13229)    G8 (PF10162)    TIG (PF01833)   
Domain families : Pfam (NCBI)pfam13229    pfam10162    pfam01833   
Domain families : Smart (EMBL)G8 (SM01225)  IPT (SM00429)  PbH1 (SM00710)  
Conserved Domain (NCBI)PKHD1
SuperfamilyP08F94
AlphaFold pdb e-kbP08F94   
Human Protein Atlas [tissue]ENSG00000170927-PKHD1 [tissue]
HPRD05987
Protein Interaction databases
DIP (DOE-UCLA)P08F94
IntAct (EBI)P08F94
BioGRIDPKHD1
STRING (EMBL)PKHD1
ZODIACPKHD1
Ontologies - Pathways
QuickGOP08F94
Ontology : AmiGOestablishment of mitotic spindle orientation  chromosome, centromeric region  kidney development  regulation of cell-matrix adhesion  epithelial cell morphogenesis  protein binding  nucleus  cytoplasm  endoplasmic reticulum  Golgi apparatus  centrosome  cilium  cilium  cellular calcium ion homeostasis  positive regulation of cell population proliferation  regulation of centrosome duplication  integral component of membrane  apical plasma membrane  regulation of cell-cell adhesion  regulation of cell adhesion  anchored component of external side of plasma membrane  regulation of TOR signaling  negative regulation of NF-kappaB transcription factor activity  ciliary basal body  signaling receptor activity  homeostatic process  negative regulation of apoptotic process  cell-cell junction organization  perinuclear region of cytoplasm  branching morphogenesis of an epithelial tube  positive regulation of epithelial cell proliferation  negative regulation of cellular component movement  establishment of centrosome localization  negative regulation of protein kinase B signaling  cilium assembly  extracellular exosome  extracellular exosome  regulation of ERK1 and ERK2 cascade  mitotic spindle  regulation of establishment of planar polarity  9+0 non-motile cilium  cell-cell adhesion  negative regulation of epithelial cell apoptotic process  regulation of cholangiocyte proliferation  
Ontology : EGO-EBIestablishment of mitotic spindle orientation  chromosome, centromeric region  kidney development  regulation of cell-matrix adhesion  epithelial cell morphogenesis  protein binding  nucleus  cytoplasm  endoplasmic reticulum  Golgi apparatus  centrosome  cilium  cilium  cellular calcium ion homeostasis  positive regulation of cell population proliferation  regulation of centrosome duplication  integral component of membrane  apical plasma membrane  regulation of cell-cell adhesion  regulation of cell adhesion  anchored component of external side of plasma membrane  regulation of TOR signaling  negative regulation of NF-kappaB transcription factor activity  ciliary basal body  signaling receptor activity  homeostatic process  negative regulation of apoptotic process  cell-cell junction organization  perinuclear region of cytoplasm  branching morphogenesis of an epithelial tube  positive regulation of epithelial cell proliferation  negative regulation of cellular component movement  establishment of centrosome localization  negative regulation of protein kinase B signaling  cilium assembly  extracellular exosome  extracellular exosome  regulation of ERK1 and ERK2 cascade  mitotic spindle  regulation of establishment of planar polarity  9+0 non-motile cilium  cell-cell adhesion  negative regulation of epithelial cell apoptotic process  regulation of cholangiocyte proliferation  
NDEx NetworkPKHD1
Atlas of Cancer Signalling NetworkPKHD1
Wikipedia pathwaysPKHD1
Orthology - Evolution
OrthoDB5314
GeneTree (enSembl)ENSG00000170927
Phylogenetic Trees/Animal Genes : TreeFamPKHD1
Homologs : HomoloGenePKHD1
Homology/Alignments : Family Browser (UCSC)PKHD1
Gene fusions - Rearrangements
Fusion : MitelmanPKHD1/RCAN2 [6p12.3/6p21.1]  
Fusion : QuiverPKHD1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPKHD1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PKHD1
dbVarPKHD1
ClinVarPKHD1
MonarchPKHD1
1000_GenomesPKHD1 
Exome Variant ServerPKHD1
GNOMAD BrowserENSG00000170927
Varsome BrowserPKHD1
ACMGPKHD1 variants
VarityP08F94
Genomic Variants (DGV)PKHD1 [DGVbeta]
DECIPHERPKHD1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPKHD1 
Mutations
ICGC Data PortalPKHD1 
TCGA Data PortalPKHD1 
Broad Tumor PortalPKHD1
OASIS PortalPKHD1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPKHD1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DPKHD1
Mutations and Diseases : HGMDPKHD1
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaPKHD1
DgiDB (Drug Gene Interaction Database)PKHD1
DoCM (Curated mutations)PKHD1
CIViC (Clinical Interpretations of Variants in Cancer)PKHD1
Cancer3DPKHD1
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM263200    606702   
Orphanet97    10715   
DisGeNETPKHD1
MedgenPKHD1
Genetic Testing Registry PKHD1
NextProtP08F94 [Medical]
GENETestsPKHD1
Target ValidationPKHD1
Huge Navigator PKHD1 [HugePedia]
ClinGenPKHD1
Clinical trials, drugs, therapy
MyCancerGenomePKHD1
Protein Interactions : CTDPKHD1
Pharm GKB GenePA33348
PharosP08F94
Clinical trialPKHD1
Miscellaneous
canSAR (ICR)PKHD1
HarmonizomePKHD1
DataMed IndexPKHD1
Probes
Litterature
PubMed91 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXPKHD1
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 Oct 4 15:25:28 CEST 2021

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.