Human Gene PPFIA3 (ENST00000334186.9_8) from GENCODE V47lift37
  Description: PTPRF interacting protein alpha 3, transcript variant 2 (from RefSeq NR_103842.2)
Gencode Transcript: ENST00000334186.9_8
Gencode Gene: ENSG00000177380.14_17
Transcript (Including UTRs)
   Position: hg19 chr19:49,622,801-49,654,283 Size: 31,483 Total Exon Count: 30 Strand: +
Coding Region
   Position: hg19 chr19:49,631,131-49,653,395 Size: 22,265 Coding Exon Count: 28 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:49,622,801-49,654,283)mRNA (may differ from genome)Protein (1194 aa)
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BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LIPA3_HUMAN
DESCRIPTION: RecName: Full=Liprin-alpha-3; AltName: Full=Protein tyrosine phosphatase receptor type f polypeptide-interacting protein alpha-3; Short=PTPRF-interacting protein alpha-3;
FUNCTION: May regulate the disassembly of focal adhesions. May localize receptor-like tyrosine phosphatases type 2A at specific sites on the plasma membrane, possibly regulating their interaction with the extracellular environment and their association with substrates.
SUBUNIT: Forms homodimers and heterodimers with liprins-alpha and liprins-beta. Interacts with the second PTPase domain of PTPRD, PTPRF and PTPRS. Binds RIMS1, RIMS2, RIMS3 and RIMS4 (By similarity).
SUBCELLULAR LOCATION: Cytoplasm (By similarity). Cell surface (By similarity). Note=Colocalizes with PTPRF at the cell surface (By similarity).
TISSUE SPECIFICITY: Expressed only in brain.
DOMAIN: The N-terminal coiled coil regions mediate homodimerization preferentially and heterodimerization type alpha/alpha. The C-terminal, non-coiled coil regions mediate heterodimerization type alpha/beta and interaction with PTPRD, PTPRF and PTPRS.
SIMILARITY: Belongs to the liprin family. Liprin-alpha subfamily.
SIMILARITY: Contains 3 SAM (sterile alpha motif) domains.
SEQUENCE CAUTION: Sequence=BAA31629.2; Type=Erroneous initiation;

-  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


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

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 35.84 RPKM in Brain - Cerebellum
Total median expression: 362.74 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -79.60194-0.410 Picture PostScript Text
3' UTR -391.20804-0.487 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
IPR001660 - SAM
IPR013761 - SAM/pointed
IPR011510 - SAM_2
IPR021129 - SAM_type1

Pfam Domains:
PF00536 - SAM domain (Sterile alpha motif)
PF07647 - SAM domain (Sterile alpha motif)

SCOP Domains:
47769 - SAM/Pointed domain
57997 - Tropomyosin
58104 - Methyl-accepting chemotaxis protein (MCP) signaling domain

ModBase Predicted Comparative 3D Structure on O75145
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-  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:0005515 protein binding

Biological Process:
GO:0007269 neurotransmitter secretion
GO:0048172 regulation of short-term neuronal synaptic plasticity

Cellular Component:
GO:0001669 acrosomal vesicle
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0031410 cytoplasmic vesicle
GO:0048786 presynaptic active zone
GO:0098875 epididymosome


-  Descriptions from all associated GenBank mRNAs
  AB014554 - Homo sapiens KIAA0654 mRNA for KIAA0654 protein.
BC101518 - Homo sapiens protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 3, mRNA (cDNA clone MGC:126567 IMAGE:8069024), complete cds.
BC101520 - Homo sapiens protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 3, mRNA (cDNA clone MGC:126569 IMAGE:8069026), complete cds.
BC143470 - Homo sapiens cDNA clone IMAGE:9051978.
JD386534 - Sequence 367558 from Patent EP1572962.
AK289757 - Homo sapiens cDNA FLJ76745 complete cds, highly similar to Homo sapiens protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 3 (PPFIA3), mRNA.
AB383941 - Synthetic construct DNA, clone: pF1KSDA0654, Homo sapiens PPFIA3 gene for liprin-alpha-3, complete cds, without stop codon, in Flexi system.
AK308483 - Homo sapiens cDNA, FLJ98524.
AK293798 - Homo sapiens cDNA FLJ60233 complete cds, highly similar to Liprin-alpha-3.
AK025972 - Homo sapiens cDNA: FLJ22319 fis, clone HRC05349.
AF034800 - Homo sapiens liprin-alpha3 mRNA, partial cds.
BC021255 - Homo sapiens protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 3, mRNA (cDNA clone IMAGE:3528075), partial cds.
AK023850 - Homo sapiens cDNA FLJ13788 fis, clone SKNMC1000046, highly similar to Homo sapiens liprin-alpha3 mRNA.
AK001525 - Homo sapiens cDNA FLJ10663 fis, clone NT2RP2006186, highly similar to Homo sapiens mRNA for KIAA0654 protein.
JD535787 - Sequence 516811 from Patent EP1572962.
JD539793 - Sequence 520817 from Patent EP1572962.
JD115263 - Sequence 96287 from Patent EP1572962.
JD175227 - Sequence 156251 from Patent EP1572962.
JD389608 - Sequence 370632 from Patent EP1572962.
JD125964 - Sequence 106988 from Patent EP1572962.
JD542098 - Sequence 523122 from Patent EP1572962.
JD211070 - Sequence 192094 from Patent EP1572962.
JD391333 - Sequence 372357 from Patent EP1572962.
JD256629 - Sequence 237653 from Patent EP1572962.
JD492272 - Sequence 473296 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein O75145 (Reactome details) participates in the following event(s):

R-HSA-210426 Glutamate synaptic vesicle docking and priming
R-HSA-372505 Acetylcholine synaptic vesicle docking and priming
R-HSA-374922 Noradrenalin synaptic vesicle docking and priming
R-HSA-380574 Dopamine synaptic vesicle docking and priming
R-HSA-380905 Serotonin loaded synaptic vesicle docking and priming
R-HSA-210430 release of L-Glutamate at the synapse
R-HSA-372529 Release of acetylcholine at the synapse
R-HSA-374899 Release of noradrenaline at the synapse
R-HSA-380869 Release of docked dopamine loaded synaptic vesicle
R-HSA-380901 Release of docked serotonin loaded synaptic vesicle
R-HSA-388824 PTPRF, PTPRS, PTPRD bind Liprins
R-HSA-210500 Glutamate Neurotransmitter Release Cycle
R-HSA-264642 Acetylcholine Neurotransmitter Release Cycle
R-HSA-181430 Norepinephrine Neurotransmitter Release Cycle
R-HSA-212676 Dopamine Neurotransmitter Release Cycle
R-HSA-181429 Serotonin Neurotransmitter Release Cycle
R-HSA-388844 Receptor-type tyrosine-protein phosphatases
R-HSA-112310 Neurotransmitter release cycle
R-HSA-6794362 Protein-protein interactions at synapses
R-HSA-112315 Transmission across Chemical Synapses
R-HSA-112316 Neuronal System

-  Other Names for This Gene
  Alternate Gene Symbols: A8K142, ENST00000334186.1, ENST00000334186.2, ENST00000334186.3, ENST00000334186.4, ENST00000334186.5, ENST00000334186.6, ENST00000334186.7, ENST00000334186.8, KIAA0654, LIPA3_HUMAN, NR_103842, O75145, Q3MJA0, Q9H8B5, Q9UEW4, uc317twi.1, uc317twi.2
UCSC ID: ENST00000334186.9_8
RefSeq Accession: NM_003660.4
Protein: O75145 (aka LIPA3_HUMAN or LPA3_HUMAN)

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