Human Gene YAP1 (uc001pgu.3)
  Description: Homo sapiens Yes-associated protein 1 (YAP1), transcript variant 3, mRNA.
RefSeq Summary (NM_001195044): This gene encodes a downstream nuclear effector of the Hippo signaling pathway which is involved in development, growth, repair, and homeostasis. This gene is known to play a role in the development and progression of multiple cancers as a transcriptional regulator of this signaling pathway and may function as a potential target for cancer treatment. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Aug 2013].
Transcript (Including UTRs)
   Position: hg19 chr11:101,981,192-102,104,154 Size: 122,963 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr11:101,981,580-102,100,671 Size: 119,092 Coding Exon Count: 8 

Page IndexSequence and LinksPrimersGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:101,981,192-102,104,154)mRNA (may differ from genome)Protein (488 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMalacardsMGIOMIM
PubMedReactomeTreefamUniProtKBBioGrid CRISPR DB

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): YAP1
CDC HuGE Published Literature: YAP1
Positive Disease Associations: Alzheimer Disease , Brain
Related Studies:
  1. Alzheimer Disease
    S J Furney et al. Molecular psychiatry 2011, Genome-wide association with MRI atrophy measures as a quantitative trait locus for Alzheimer's disease., Molecular psychiatry. [PubMed 21116278]
  2. Brain
    Sudha Seshadri et al. BMC medical genetics 2007, Genetic correlates of brain aging on MRI and cognitive test measures: a genome-wide association and linkage analysis in the Framingham Study., BMC medical genetics. [PubMed 17903297]
    Our results suggest that genes associated with clinical neurological disease also have detectable effects on subclinical phenotypes. These hypothesis generating data illustrate the use of an unbiased approach to discover novel pathways that may be involved in brain aging, and could be used to replicate observations made in other studies.
  3. Brain
    Sudha Seshadri et al. BMC medical genetics 2007, Genetic correlates of brain aging on MRI and cognitive test measures: a genome-wide association and linkage analysis in the Framingham Study., BMC medical genetics. [PubMed 17903297]
    Our results suggest that genes associated with clinical neurological disease also have detectable effects on subclinical phenotypes. These hypothesis generating data illustrate the use of an unbiased approach to discover novel pathways that may be involved in brain aging, and could be used to replicate observations made in other studies.
           more ... click here to view the complete list

-  MalaCards Disease Associations
  MalaCards Gene Search: YAP1
Diseases sorted by gene-association score: coloboma, ocular, with or without hearing impairment, cleft lip/palate, and/or mental retardation* (1270), coloboma, ocular* (296), coloboma* (292), epithelioid hemangioendothelioma* (260), ovarian serous cystadenocarcinoma (9), japanese spotted fever (9), wilson-turner syndrome (7), liver angiosarcoma (7), histiocytoid hemangioma (6), serous cystadenocarcinoma (6), cleft lip/palate (5), clear cell ependymoma (5), pancreatic ductal adenocarcinoma (3), autosomal dominant disease (2)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D013749 Tetrachlorodibenzodioxin
  • C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene
  • C488288 2,5,7,8-tetramethyl-2R-(4R,8R,12-trimethyltridecyl)chroman-6-yloxy acetic acid
  • C036990 2-amino-3,8-dimethylimidazo(4,5-f)quinoxaline
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • D000082 Acetaminophen
  • D016604 Aflatoxin B1
  • D017638 Asbestos, Crocidolite
  • D001564 Benzo(a)pyrene
  • D002794 Choline
          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: 65.95 RPKM in Artery - Aorta
Total median expression: 1172.65 RPKM



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

+  Microarray Expression Data
  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 -199.00388-0.513 Picture PostScript Text
3' UTR -909.903483-0.261 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
  Pfam Domains:
PF00397 - WW domain

SCOP Domains:
51045 - WW domain

ModBase Predicted Comparative 3D Structure on P46937-2
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 orthologGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsemblFlyBase  
 Protein SequenceProtein SequenceProtein Sequence  
 AlignmentAlignmentAlignment  

-  Descriptions from all associated GenBank mRNAs
  AK300414 - Homo sapiens cDNA FLJ51091 complete cds, highly similar to 65 kDa Yes-associated protein.
LF384509 - JP 2014500723-A/192012: Polycomb-Associated Non-Coding RNAs.
BC038235 - Homo sapiens Yes-associated protein 1, 65kDa, mRNA (cDNA clone MGC:46148 IMAGE:5747370), complete cds.
JD472072 - Sequence 453096 from Patent EP1572962.
JD404636 - Sequence 385660 from Patent EP1572962.
JD128458 - Sequence 109482 from Patent EP1572962.
JD201076 - Sequence 182100 from Patent EP1572962.
JD109109 - Sequence 90133 from Patent EP1572962.
AB528588 - Synthetic construct DNA, clone: pF1KB9405, Homo sapiens YAP1 gene for Yes-associated protein 1, 65kDa, without stop codon, in Flexi system.
KJ898207 - Synthetic construct Homo sapiens clone ccsbBroadEn_07601 YAP1 gene, encodes complete protein.
AB567720 - Homo sapiens YAP mRNA for yes-associated protein beta, complete cds.
AB567721 - Homo sapiens YAP mRNA for yes-associated protein delta, complete cds.
AY316529 - Homo sapiens yes-associated protein 2 (YAP2) mRNA, complete cds.
AK316116 - Homo sapiens cDNA, FLJ79015 complete cds, highly similar to 65 kDa Yes-associated protein.
AL832620 - Homo sapiens mRNA; cDNA DKFZp451O0517 (from clone DKFZp451O0517).
HE864159 - Homo sapiens mRNA for YAP1 (YAP1 gene), isoform 5.
HE864160 - Homo sapiens mRNA for YAP1 (YAP1 gene), isoform 6.
HE864161 - Homo sapiens mRNA for YAP1 (YAP1 gene), isoform 7.
HE864162 - Homo sapiens mRNA for YAP1 (YAP1 gene), isoform 8.
HE864163 - Homo sapiens mRNA for YAP1 (YAP1 gene), isoform 9.
AK304485 - Homo sapiens cDNA FLJ51192 complete cds, highly similar to 65 kDa Yes-associated protein.
BC026212 - Homo sapiens Yes-associated protein 1, 65kDa, mRNA (cDNA clone IMAGE:3915463).
AK310620 - Homo sapiens cDNA, FLJ17662.
JD109855 - Sequence 90879 from Patent EP1572962.
JD562967 - Sequence 543991 from Patent EP1572962.
JD238585 - Sequence 219609 from Patent EP1572962.
JD264767 - Sequence 245791 from Patent EP1572962.
JD443807 - Sequence 424831 from Patent EP1572962.
JD468037 - Sequence 449061 from Patent EP1572962.
JD182127 - Sequence 163151 from Patent EP1572962.
JD279860 - Sequence 260884 from Patent EP1572962.
JD418838 - Sequence 399862 from Patent EP1572962.
CQ873859 - Sequence 278 from Patent WO2004076622.
DD413696 - Regulation of Mammalian Cells.
JD202005 - Sequence 183029 from Patent EP1572962.
JD507978 - Sequence 489002 from Patent EP1572962.
JD314535 - Sequence 295559 from Patent EP1572962.
JD525955 - Sequence 506979 from Patent EP1572962.
JD560211 - Sequence 541235 from Patent EP1572962.
JD483586 - Sequence 464610 from Patent EP1572962.
JD563508 - Sequence 544532 from Patent EP1572962.
JD242212 - Sequence 223236 from Patent EP1572962.
JD483844 - Sequence 464868 from Patent EP1572962.
JD181555 - Sequence 162579 from Patent EP1572962.
JD506400 - Sequence 487424 from Patent EP1572962.
JD297756 - Sequence 278780 from Patent EP1572962.
JD127415 - Sequence 108439 from Patent EP1572962.
JD239243 - Sequence 220267 from Patent EP1572962.
JD146741 - Sequence 127765 from Patent EP1572962.
JD509908 - Sequence 490932 from Patent EP1572962.
JD313096 - Sequence 294120 from Patent EP1572962.
JD230575 - Sequence 211599 from Patent EP1572962.
MA620086 - JP 2018138019-A/192012: Polycomb-Associated Non-Coding RNAs.

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

Protein P46937 (Reactome details) participates in the following event(s):

R-HSA-2032775 YAP1 binds TEAD1
R-HSA-8871260 YAP1 binds TEAD2
R-HSA-8871265 YAP1 binds TEAD4
R-HSA-8871266 YAP1 binds TEAD3
R-HSA-8956639 RUNX1 binds YAP1
R-HSA-8956659 ABL1 phosphorylates YAP1
R-HSA-2032770 Translocation of YAP1 to the nucleus
R-HSA-1254251 ERBB4s80 binds YAP1
R-HSA-2028583 Phosphorylation of YAP by LATS2
R-HSA-2028598 Phosphorylation of YAP by LATS1
R-HSA-2028724 AMOT proteins bind YAP1
R-HSA-2064421 YAP1 binds ZO-2 (TJP2)
R-HSA-8937820 SRC,YES1 bind YAP1
R-HSA-8937856 p-Y-YAP1 translocates to the nucleus
R-HSA-8937844 SRC,YES1 phosphorylate YAP1
R-HSA-8937864 RUNX2 binds tyrosine phosphorylated YAP1
R-HSA-8956676 YAP1 binds TP73
R-HSA-1254248 Translocation of ERBB4s80:YAP1 complex to the nucleus
R-HSA-2064406 Translocation of YAP1:ZO-2 (TJP2) to the nucleus
R-HSA-8951676 RUNX3 binds TEADs and YAP1
R-HSA-8956649 The complex of RUNX1 and YAP1 binds the ITCH gene promoter
R-HSA-2028644 YWHAB (14-3-3 beta/alpha) dimer binds phosphorylated YAP1
R-HSA-8937869 RUNX2:CBFB:p-Y-YAP1 binds the BGLAP gene promoter
R-HSA-8951695 TEADs:YAP1 binds CTGF gene
R-HSA-2032785 YAP1- and WWTR1 (TAZ)-stimulated gene expression
R-HSA-8939236 RUNX1 regulates transcription of genes involved in differentiation of HSCs
R-HSA-2028269 Signaling by Hippo
R-HSA-1251985 Nuclear signaling by ERBB4
R-HSA-8940973 RUNX2 regulates osteoblast differentiation
R-HSA-8951671 RUNX3 regulates YAP1-mediated transcription
R-HSA-212436 Generic Transcription Pathway
R-HSA-8878171 Transcriptional regulation by RUNX1
R-HSA-162582 Signal Transduction
R-HSA-1236394 Signaling by ERBB4
R-HSA-8941326 RUNX2 regulates bone development
R-HSA-8878159 Transcriptional regulation by RUNX3
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-8878166 Transcriptional regulation by RUNX2
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001195044, NP_001181973, P46937-2, YAP65
UCSC ID: uc001pgu.3
RefSeq Accession: NM_001195044
Protein: P46937-2, splice isoform of P46937 CCDS: CCDS44716.1, CCDS53699.1, CCDS60944.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001195044.1
exon count: 8CDS single in 3' UTR: no RNA size: 5348
ORF size: 1467CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3101.00frame shift in genome: no % Coverage: 99.81
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.