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Aliases for PKHD1 Gene

Aliases for PKHD1 Gene

  • Polycystic Kidney And Hepatic Disease 1 (Autosomal Recessive) 2 3 5
  • Polyductin 2 3 4
  • Tigmin 2 3 4
  • Polycystic Kidney And Hepatic Disease 1 Protein 3 4
  • TIG Multiple Domains 1 2 3
  • TIGM1 3 4
  • FCYT 3 4
  • Fibrocystin 2
  • ARPKD 3

External Ids for PKHD1 Gene

Previous HGNC Symbols for PKHD1 Gene

  • TIGM1

Previous GeneCards Identifiers for PKHD1 Gene

  • GC06M051482
  • GC06M051526
  • GC06M051480
  • GC06M051314

Summaries for PKHD1 Gene

Entrez Gene Summary for PKHD1 Gene

  • The protein encoded by this gene is predicted to have a single transmembrane (TM)-spanning domain and multiple copies of an immunoglobulin-like plexin-transcription-factor domain. Alternative splicing results in two transcript variants encoding different isoforms. Other alternatively spliced transcripts have been described, but the full length sequences have not been determined. Several of these transcripts are predicted to encode truncated products which lack the TM and may be secreted. Mutations in this gene cause autosomal recessive polycystic kidney disease, also known as polycystic kidney and hepatic disease-1. [provided by RefSeq, Jul 2008]

GeneCards Summary for PKHD1 Gene

PKHD1 (Polycystic Kidney And Hepatic Disease 1 (Autosomal Recessive)) is a Protein Coding gene. Diseases associated with PKHD1 include polycystic kidney and hepatic disease and caroli disease. GO annotations related to this gene include receptor activity. An important paralog of this gene is CEMIP.

UniProtKB/Swiss-Prot for PKHD1 Gene

  • May be required for correct bipolar cell division through the regulation of centrosome duplication and mitotic spindle assembly. May be a receptor protein that acts in collecting-duct and biliary differentiation.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PKHD1 Gene

Genomics for PKHD1 Gene

Regulatory Elements for PKHD1 Gene

Genomic Location for PKHD1 Gene

Chromosome:
6
Start:
51,614,685 bp from pter
End:
52,087,625 bp from pter
Size:
472,941 bases
Orientation:
Minus strand

Genomic View for PKHD1 Gene

Genes around PKHD1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PKHD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PKHD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PKHD1 Gene

Proteins for PKHD1 Gene

  • Protein details for PKHD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P08F94-PKHD1_HUMAN
    Recommended name:
    Fibrocystin
    Protein Accession:
    P08F94
    Secondary Accessions:
    • Q5VUA2
    • Q5VUA3
    • Q5VWV1
    • Q86Z26
    • Q8TCZ9

    Protein attributes for PKHD1 Gene

    Size:
    4074 amino acids
    Molecular mass:
    446702 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PKHD1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PKHD1 Gene

Proteomics data for PKHD1 Gene at MOPED

Post-translational modifications for PKHD1 Gene

  • Glycosylation at Asn 54, Asn 226, Asn 276, Asn 357, Asn 387, Asn 507, Asn 520, Asn 529, Asn 641, Asn 711, Asn 830, Asn 869, Asn 967, Asn 977, Asn 1065, Asn 1084, Asn 1116, Asn 1135, Asn 1234, Asn 1241, Asn 1312, Asn 1323, Asn 1346, Asn 1377, Asn 1460, Asn 1475, Asn 1494, Asn 1527, Asn 1532, Asn 1564, Asn 1582, Asn 1602, Asn 1631, Asn 1698, Asn 1764, Asn 1779, Asn 1879, Asn 1883, Asn 1919, Asn 1945, Asn 1959, Asn 2034, Asn 2115, Asn 2144, Asn 2350, Asn 2385, Asn 2435, Asn 2471, Asn 2509, Asn 2535, Asn 2553, Asn 2595, Asn 2633, Asn 2753, Asn 2768, Asn 3008, Asn 3140, Asn 3169, Asn 3225, Asn 3488, Asn 3528, Asn 3707, Asn 3726, and Asn 3838
  • Modification sites at PhosphoSitePlus

Other Protein References for PKHD1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PKHD1 Gene

Domains & Families for PKHD1 Gene

Protein Domains for PKHD1 Gene

Suggested Antigen Peptide Sequences for PKHD1 Gene

Graphical View of Domain Structure for InterPro Entry

P08F94

UniProtKB/Swiss-Prot:

PKHD1_HUMAN :
  • Contains 2 G8 domains.
  • Contains 9 PbH1 repeats.
Domain:
  • Contains 2 G8 domains.
  • Contains 12 IPT/TIG domains.
Similarity:
  • Contains 9 PbH1 repeats.
genes like me logo Genes that share domains with PKHD1: view

No data available for Gene Families for PKHD1 Gene

Function for PKHD1 Gene

Molecular function for PKHD1 Gene

UniProtKB/Swiss-Prot Function:
May be required for correct bipolar cell division through the regulation of centrosome duplication and mitotic spindle assembly. May be a receptor protein that acts in collecting-duct and biliary differentiation.
genes like me logo Genes that share phenotypes with PKHD1: view

Human Phenotype Ontology for PKHD1 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for PKHD1 Gene

MGI Knock Outs for PKHD1:

Animal Model Products

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Transcription Factor Targets and HOMER Transcription for PKHD1 Gene

Localization for PKHD1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PKHD1 Gene

Cell membrane; Single-pass type I membrane protein. Cytoplasm. Cell projection, cilium. Cytoplasm, cytoskeleton, cilium basal body. Cytoplasm, cytoskeleton, spindle. Chromosome, centromere.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PKHD1 Gene COMPARTMENTS Subcellular localization image for PKHD1 gene
Compartment Confidence
cytoskeleton 5
extracellular 5
plasma membrane 5

Gene Ontology (GO) - Cellular Components for PKHD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PKHD1: view

Pathways & Interactions for PKHD1 Gene

SuperPathways for PKHD1 Gene

No Data Available

Interacting Proteins for PKHD1 Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000360158%0d%0a9606.ENSP00000297156%0d%0a9606.ENSP00000368516%0d%0a
Selected Interacting proteins: ENSP00000360158 P08F94-PKHD1_HUMAN for PKHD1 Gene via STRING I2D

Gene Ontology (GO) - Biological Process for PKHD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008284 positive regulation of cell proliferation IMP 19943112
GO:0016337 single organismal cell-cell adhesion ISS --
GO:0032006 regulation of TOR signaling IMP 19524688
GO:0042592 homeostatic process NAS 11919560
GO:0051898 negative regulation of protein kinase B signaling IMP 21300060
genes like me logo Genes that share ontologies with PKHD1: view

No data available for Pathways by source and SIGNOR curated interactions for PKHD1 Gene

Drugs & Compounds for PKHD1 Gene

(1) Drugs for PKHD1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with PKHD1: view

Transcripts for PKHD1 Gene

Unigene Clusters for PKHD1 Gene

Polycystic kidney and hepatic disease 1 (autosomal recessive):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for PKHD1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^ 25 ^ 26 ^
SP1:
SP2:
SP3:

ExUns: 27 ^ 28 ^ 29 ^ 30 ^ 31 ^ 32 ^ 33 ^ 34 ^ 35 ^ 36 ^ 37 ^ 38 ^ 39 ^ 40 ^ 41 ^ 42 ^ 43 ^ 44 ^ 45 ^ 46 ^ 47 ^ 48 ^ 49 ^ 50 ^ 51 ^ 52 ^
SP1: -
SP2: -
SP3: -

ExUns: 53 ^ 54 ^ 55 ^ 56 ^ 57 ^ 58 ^ 59 ^ 60 ^ 61 ^ 62 ^ 63 ^ 64 ^ 65 ^ 66 ^ 67 ^ 68 ^ 69 ^ 70
SP1: - -
SP2:
SP3: -

Relevant External Links for PKHD1 Gene

GeneLoc Exon Structure for
PKHD1
ECgene alternative splicing isoforms for
PKHD1

Expression for PKHD1 Gene

mRNA expression in normal human tissues for PKHD1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PKHD1 Gene

This gene is overexpressed in Kidney - Cortex (x25.0) and Pancreas (x18.1).

Protein differential expression in normal tissues from HIPED for PKHD1 Gene

This gene is overexpressed in Plasma (36.6), Lung (15.3), and Urine (15.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PKHD1 Gene



SOURCE GeneReport for Unigene cluster for PKHD1 Gene Hs.662050

mRNA Expression by UniProt/SwissProt for PKHD1 Gene

P08F94-PKHD1_HUMAN
Tissue specificity: Predominantly expressed in fetal and adult kidney. In the kidney, it is found in the cortical and medullary collecting ducts. Also present in the adult pancreas, but at much lower levels. Detectable in fetal and adult liver. Rather indistinct signal in fetal brain.
genes like me logo Genes that share expression patterns with PKHD1: view

Protein tissue co-expression partners for PKHD1 Gene

Primer Products

In Situ Assay Products

Orthologs for PKHD1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PKHD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PKHD1 36
  • 99 (a)
OneToOne
PKHD1 35
  • 99.33 (n)
  • 98.94 (a)
cow
(Bos Taurus)
Mammalia PKHD1 36
  • 79 (a)
OneToOne
LOC537895 35
  • 83.74 (n)
  • 78.76 (a)
dog
(Canis familiaris)
Mammalia PKHD1 35
  • 85.14 (n)
  • 80.01 (a)
PKHD1 36
  • 80 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pkhd1 16
Pkhd1 36
  • 73 (a)
OneToOne
Pkhd1 35
  • 79.37 (n)
  • 72.74 (a)
oppossum
(Monodelphis domestica)
Mammalia PKHD1 36
  • 62 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PKHD1 36
  • 56 (a)
OneToOne
chicken
(Gallus gallus)
Aves PKHD1 35
  • 61.09 (n)
  • 51.8 (a)
PKHD1 36
  • 49 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pkhd1 35
  • 54.63 (n)
  • 45.24 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3786 36
  • 22 (a)
OneToMany
Species with no ortholog for PKHD1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for PKHD1 Gene

ENSEMBL:
Gene Tree for PKHD1 (if available)
TreeFam:
Gene Tree for PKHD1 (if available)

Paralogs for PKHD1 Gene

Paralogs for PKHD1 Gene

genes like me logo Genes that share paralogs with PKHD1: view

Variants for PKHD1 Gene

Sequence variations from dbSNP and Humsavar for PKHD1 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
VAR_018533 Polycystic kidney disease, autosomal recessive (ARPKD)
rs201432731 - 52,050,242(+) AGAGA(A/C)TGATT reference, missense
VAR_018535 Polycystic kidney disease, autosomal recessive (ARPKD)
VAR_018536 Polycystic kidney disease, autosomal recessive (ARPKD)
VAR_018537 Polycystic kidney disease, autosomal recessive (ARPKD)

Structural Variations from Database of Genomic Variants (DGV) for PKHD1 Gene

Variant ID Type Subtype PubMed ID
esv2448462 CNV Deletion 19546169
esv2002849 CNV Deletion 18987734
esv3575 CNV Deletion 18987735
esv2732071 CNV Deletion 23290073
esv1002109 CNV Deletion 20482838
esv6562 CNV Loss 19470904
esv1140845 CNV Deletion 17803354
nsv526292 CNV Gain 19592680
nsv510899 CNV Complex 20534489
nsv510029 CNV Loss 20534489
esv2661375 CNV Deletion 23128226
esv24252 CNV Loss 19812545
esv33924 CNV Gain 17666407
nsv507329 CNV Insertion 20534489
esv33429 CNV Gain 17666407
nsv5303 CNV Loss 18451855
nsv511313 CNV Loss 21212237
nsv511882 CNV Loss 21212237
nsv820795 CNV Deletion 20802225
esv5268 CNV Deletion 18987735
esv2732072 CNV Deletion 23290073
esv2664845 CNV Deletion 23128226
esv23003 CNV Gain+Loss 19812545
esv2587934 CNV Deletion 19546169
nsv436518 CNV Deletion 17901297
esv2732074 CNV Deletion 23290073
nsv499787 CNV Loss 21111241
esv2657311 CNV Deletion 23128226
nsv349361 CNV Loss 16902084
nsv823689 CNV Loss 20364138
esv2732075 CNV Deletion 23290073
esv23422 CNV Gain 19812545
esv990745 CNV Deletion 20482838
esv2663435 CNV Deletion 23128226
nsv509134 CNV Insertion 20534489
esv1493351 CNV Insertion 17803354
esv1154861 CNV Insertion 17803354
esv2555448 CNV Insertion 19546169
esv2551556 CNV Deletion 19546169
dgv1052e201 CNV Deletion 23290073
esv2732077 CNV Deletion 23290073
esv2732079 CNV Deletion 23290073
esv271875 CNV Insertion 20981092
esv272475 CNV Insertion 20981092
nsv830662 CNV Gain 17160897

Variation tolerance for PKHD1 Gene

Residual Variation Intolerance Score: 67.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 11.95; 93.61% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PKHD1 Gene

HapMap Linkage Disequilibrium report
PKHD1
Human Gene Mutation Database (HGMD)
PKHD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PKHD1 Gene

Disorders for PKHD1 Gene

MalaCards: The human disease database

(27) MalaCards diseases for PKHD1 Gene - From: OMIM, ClinVar, GeneTests, Orphanet, Swiss-Prot, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
polycystic kidney and hepatic disease
  • polycystic kidney and hepatic disease 1
caroli disease
  • caroli disease isolated
hepatic cystic hamartoma
  • biliary hamartoma
polycystic kidney disease
  • congenital biliary ectasias
kidney disease
  • nephropathy
- elite association - COSMIC cancer census association via MalaCards
Search PKHD1 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

PKHD1_HUMAN
  • Polycystic kidney disease, autosomal recessive (ARPKD) [MIM:263200]: A severe form of polycystic kidney disease affecting the kidneys and the hepatic biliary tract. The clinical spectrum is widely variable, with most cases presenting during infancy. The fetal phenotypic features classically include enlarged and echogenic kidneys, as well as oligohydramnios secondary to a poor urine output. Up to 50% of the affected neonates die shortly after birth, as a result of severe pulmonary hypoplasia and secondary respiratory insufficiency. In the subset that survives the perinatal period, morbidity and mortality are mainly related to severe systemic hypertension, renal insufficiency, and portal hypertension due to portal-tract fibrosis. {ECO:0000269 PubMed:11898128, ECO:0000269 PubMed:11919560, ECO:0000269 PubMed:12506140, ECO:0000269 PubMed:12846734, ECO:0000269 PubMed:12874454, ECO:0000269 PubMed:15108281, ECO:0000269 PubMed:16677362, ECO:0000269 PubMed:19914852, ECO:0000269 PubMed:25701400}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for PKHD1

Genetic Association Database (GAD)
PKHD1
Human Genome Epidemiology (HuGE) Navigator
PKHD1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PKHD1
genes like me logo Genes that share disorders with PKHD1: view

No data available for Genatlas for PKHD1 Gene

Publications for PKHD1 Gene

  1. Polyductin, the PKHD1 gene product, comprises isoforms expressed in plasma membrane, primary cilium, and cytoplasm. (PMID: 15458427) Menezes L.F. … Onuchic L.F. (Kidney Int. 2004) 3 4 23 67
  2. PKHD1 sequence variations in 78 children and adults with autosomal recessive polycystic kidney disease and congenital hepatic fibrosis. (PMID: 19914852) Gunay-Aygun M. … Gahl W.A. (Mol. Genet. Metab. 2010) 3 23
  3. Genotype-phenotype correlations in fetuses and neonates with autosomal recessive polycystic kidney disease. (PMID: 19940839) Denamur E. … Wann A.R. (Kidney Int. 2010) 3 23
  4. NF-kappaB activation is required for apoptosis in fibrocystin/polyductin-depleted kidney epithelial cells. (PMID: 19943112) Mangolini A. … del Senno L. (Apoptosis 2010) 3 23
  5. Characterization of PKD protein-positive exosome-like vesicles. (PMID: 19158352) Hogan M.C. … Ward C.J. (J. Am. Soc. Nephrol. 2009) 3 23

Products for PKHD1 Gene

Sources for PKHD1 Gene

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