Human Gene PKD1L3 (ENST00000620267.2_6) from GENCODE V47lift37
  Description: polycystin 1 like 3, transient receptor potential channel interacting (from RefSeq NM_181536.2)
Gencode Transcript: ENST00000620267.2_6
Gencode Gene: ENSG00000277481.2_9
Transcript (Including UTRs)
   Position: hg19 chr16:71,963,441-72,034,301 Size: 70,861 Total Exon Count: 31 Strand: -
Coding Region
   Position: hg19 chr16:71,963,441-72,033,877 Size: 70,437 Coding Exon Count: 31 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:71,963,441-72,034,301)mRNA (may differ from genome)Protein (1727 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PK1L3_HUMAN
DESCRIPTION: RecName: Full=Polycystic kidney disease protein 1-like 3; AltName: Full=PC1-like 3 protein; AltName: Full=Polycystin-1L3; Flags: Precursor;
FUNCTION: May function as an ion-channel regulator. May function with PKD2L1 as heteromeric taste channels (By similarity).
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
TISSUE SPECIFICITY: Highly expressed in placenta, weakly in heart and lung.
SIMILARITY: Belongs to the polycystin family.
SIMILARITY: Contains 1 C-type lectin domain.
SIMILARITY: Contains 1 GPS domain.
SIMILARITY: Contains 1 PLAT domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: PKD1L3
Diseases sorted by gene-association score: polycystic kidney disease 1 (22), polycystic kidney disease (19), kidney disease (14), polycystic kidney disease 2 (7)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -90.50424-0.213 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001304 - C-type_lectin
IPR016186 - C-type_lectin-like
IPR016187 - C-type_lectin_fold
IPR000203 - GPS_dom
IPR008976 - Lipase_LipOase
IPR001024 - LipOase_LH2
IPR013122 - PKD1_2_channel
IPR000434 - PKD_1

Pfam Domains:
PF00059 - Lectin C-type domain
PF00520 - Ion transport protein
PF01477 - PLAT/LH2 domain
PF01825 - GPCR proteolysis site, GPS, motif
PF08016 - Polycystin cation channel

SCOP Domains:
49723 - Lipase/lipooxygenase domain (PLAT/LH2 domain)
56436 - C-type lectin-like
81324 - Voltage-gated potassium channels

ModBase Predicted Comparative 3D Structure on Q7Z443
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005262 calcium channel activity
GO:0005515 protein binding
GO:0030246 carbohydrate binding
GO:0005261 cation channel activity
GO:0008324 cation transmembrane transporter activity
GO:0033040 sour taste receptor activity

Biological Process:
GO:0001581 detection of chemical stimulus involved in sensory perception of sour taste
GO:0001822 kidney development
GO:0006811 ion transport
GO:0006812 cation transport
GO:0006816 calcium ion transport
GO:0050915 sensory perception of sour taste
GO:0050982 detection of mechanical stimulus
GO:0070588 calcium ion transmembrane transport
GO:0071468 cellular response to acidic pH

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0034703 cation channel complex
GO:0043235 receptor complex
GO:0070062 extracellular exosome
GO:0009986 cell surface


-  Descriptions from all associated GenBank mRNAs
  AY164485 - Homo sapiens polycystic kidney disease 1-like 3 (PKD1L3) mRNA, complete cds.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000620267.1, NM_181536, PK1L3_HUMAN, Q7Z443, uc327sxo.1, uc327sxo.2
UCSC ID: ENST00000620267.2_6
RefSeq Accession: NM_181536.2
Protein: Q7Z443 (aka PK1L3_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.