Human Gene PHLDA3 (ENST00000367311.5_7) from GENCODE V47lift37
  Description: pleckstrin homology like domain family A member 3, transcript variant 1 (from RefSeq NM_012396.5)
Gencode Transcript: ENST00000367311.5_7
Gencode Gene: ENSG00000174307.7_9
Transcript (Including UTRs)
   Position: hg19 chr1:201,433,406-201,438,316 Size: 4,911 Total Exon Count: 2 Strand: -
Coding Region
   Position: hg19 chr1:201,437,531-201,437,914 Size: 384 Coding Exon Count: 1 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:201,433,406-201,438,316)mRNA (may differ from genome)Protein (127 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PHLA3_HUMAN
DESCRIPTION: RecName: Full=Pleckstrin homology-like domain family A member 3; AltName: Full=TDAG51/Ipl homolog 1;
FUNCTION: p53/TP53-regulated repressor of Akt/AKT1 signaling. Represses AKT1 by preventing AKT1-binding to membrane lipids, thereby inhibiting AKT1 translocation to the cellular membrane and activation. Contributes to p53/TP53-dependent apoptosis by repressing AKT1 activity. Its direct transcription regulation by p53/TP53 may explain how p53/TP53 can negatively regulate AKT1. May act as a tumor suppressor.
SUBCELLULAR LOCATION: Cytoplasm. Membrane; Peripheral membrane protein.
TISSUE SPECIFICITY: Widely expressed with lowest expression in liver and spleen.
INDUCTION: By p53/TP53; expression is directly activated by TP53. TP53 phosphorylation on 'Ser-15' is required to activate the PHLDA3 promoter.
DOMAIN: The PH domain binds phosphoinositides with a broad specificity. It competes with the PH domain of AKT1 and directly interferes with AKT1 binding to phosphatidylinositol 4,5- bisphosphate (PIP2) and phosphatidylinositol 3,4,5-trisphosphate (PIP3), preventing AKT1 association to membrane lipids and subsequent activation of AKT1 signaling.
MISCELLANEOUS: PHLDA3 genomic locus is frequently observed in primary lung cancers, suggesting a role in tumor suppression.
SIMILARITY: Belongs to the PHLDA3 family.
SIMILARITY: Contains 1 PH 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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 129.13 RPKM in Nerve - Tibial
Total median expression: 1486.63 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 -211.90402-0.527 Picture PostScript Text
3' UTR -746.601963-0.380 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
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology

SCOP Domains:
50729 - PH domain-like

ModBase Predicted Comparative 3D Structure on Q9Y5J5
FrontTopSide
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:0005546 phosphatidylinositol-4,5-bisphosphate binding
GO:0005547 phosphatidylinositol-3,4,5-trisphosphate binding
GO:0010314 phosphatidylinositol-5-phosphate binding
GO:0032266 phosphatidylinositol-3-phosphate binding
GO:0043325 phosphatidylinositol-3,4-bisphosphate binding
GO:0080025 phosphatidylinositol-3,5-bisphosphate binding

Biological Process:
GO:0006915 apoptotic process
GO:0009653 anatomical structure morphogenesis
GO:0042771 intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator
GO:0043065 positive regulation of apoptotic process
GO:0051898 negative regulation of protein kinase B signaling

Cellular Component:
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  BC033874 - Homo sapiens cDNA clone IMAGE:5723825.
JD159061 - Sequence 140085 from Patent EP1572962.
JD511535 - Sequence 492559 from Patent EP1572962.
JD522346 - Sequence 503370 from Patent EP1572962.
JD284570 - Sequence 265594 from Patent EP1572962.
JD286696 - Sequence 267720 from Patent EP1572962.
JD412351 - Sequence 393375 from Patent EP1572962.
JD556410 - Sequence 537434 from Patent EP1572962.
JD071037 - Sequence 52061 from Patent EP1572962.
JD319496 - Sequence 300520 from Patent EP1572962.
JD446329 - Sequence 427353 from Patent EP1572962.
JD421880 - Sequence 402904 from Patent EP1572962.
JD421879 - Sequence 402903 from Patent EP1572962.
JD497640 - Sequence 478664 from Patent EP1572962.
JD497641 - Sequence 478665 from Patent EP1572962.
JD231906 - Sequence 212930 from Patent EP1572962.
AK075179 - Homo sapiens cDNA FLJ90698 fis, clone PLACE1007028.
BC068273 - Homo sapiens pleckstrin homology-like domain, family A, member 3, mRNA (cDNA clone MGC:35306 IMAGE:5177273), complete cds.
BC014390 - Homo sapiens pleckstrin homology-like domain, family A, member 3, mRNA (cDNA clone MGC:1110 IMAGE:3547186), complete cds.
AF151100 - Homo sapiens TDAG51/Ipl homologue 1 (TIH1) mRNA, complete cds.
AK222644 - Homo sapiens mRNA for pleckstrin homology-like domain, family A, member 3 variant, clone: CBL02971.
JD216956 - Sequence 197980 from Patent EP1572962.
JD485351 - Sequence 466375 from Patent EP1572962.
JD400238 - Sequence 381262 from Patent EP1572962.
JD454946 - Sequence 435970 from Patent EP1572962.
JD336297 - Sequence 317321 from Patent EP1572962.
JD338855 - Sequence 319879 from Patent EP1572962.
JD496670 - Sequence 477694 from Patent EP1572962.
JD320670 - Sequence 301694 from Patent EP1572962.
JD250002 - Sequence 231026 from Patent EP1572962.
JD166947 - Sequence 147971 from Patent EP1572962.
JD547354 - Sequence 528378 from Patent EP1572962.
AK312115 - Homo sapiens cDNA, FLJ92397, Homo sapiens pleckstrin homology-like domain, family A, member 3(PHLDA3), mRNA.
JF432856 - Synthetic construct Homo sapiens clone IMAGE:100074178 pleckstrin homology-like domain, family A, member 3 (PHLDA3) gene, encodes complete protein.
KJ893416 - Synthetic construct Homo sapiens clone ccsbBroadEn_02810 PHLDA3 gene, encodes complete protein.
AB464032 - Synthetic construct DNA, clone: pF1KB7084, Homo sapiens PHLDA3 gene for pleckstrin homology-like domain, family A, member 3, without stop codon, in Flexi system.
JD404799 - Sequence 385823 from Patent EP1572962.
JD219704 - Sequence 200728 from Patent EP1572962.
JD180032 - Sequence 161056 from Patent EP1572962.
JD368885 - Sequence 349909 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R5A4, ENST00000367311.1, ENST00000367311.2, ENST00000367311.3, ENST00000367311.4, NM_012396, PHLA3_HUMAN, Q53HD6, Q8NBW9, Q9Y5J5, TIH1, uc318fuv.1, uc318fuv.2
UCSC ID: ENST00000367311.5_7
RefSeq Accession: NM_012396.5
Protein: Q9Y5J5 (aka PHLA3_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.