WWTR1

WW domain containing transcription regulator 1

Basic information

Region (hg38): 3:149517235-149736714

Links

ENSG00000018408NCBI:25937OMIM:607392HGNC:24042Uniprot:Q9GZV5AlphaFoldGenCCjaxSfariGnomADPubmedClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the WWTR1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the WWTR1 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type Pathogenic Likely pathogenic VUS Likely benign Benign Sum
synonymous
5
clinvar
5
missense
21
clinvar
21
nonsense
0
start loss
0
frameshift
0
inframe indel
0
splice donor/acceptor (+/-2bp)
0
splice region
0
non coding
0
Total 0 0 21 5 0

Variants in WWTR1

This is a list of pathogenic ClinVar variants found in the WWTR1 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position Type Phenotype Significance ClinVar
3-149520916-A-G Likely benign (Jun 01, 2022)2654218
3-149520934-A-G Likely benign (Aug 01, 2023)2578952
3-149520981-C-T not specified Uncertain significance (Jun 17, 2024)3333333
3-149520982-G-A Likely benign (Feb 01, 2024)3025796
3-149526043-A-G not specified Uncertain significance (Dec 28, 2023)3190926
3-149526046-C-T not specified Uncertain significance (Dec 08, 2023)3190925
3-149527860-T-C not specified Uncertain significance (Aug 12, 2021)2394185
3-149527895-G-C Likely benign (Jan 01, 2023)2654219
3-149527912-C-G not specified Uncertain significance (Mar 20, 2023)2527324
3-149527931-C-G not specified Uncertain significance (Nov 10, 2022)2325195
3-149527962-G-A not specified Uncertain significance (Aug 02, 2021)2240344
3-149542400-G-C not specified Uncertain significance (Jul 21, 2021)3190924
3-149542434-C-T Likely benign (Mar 01, 2023)2654220
3-149542448-T-C not specified Uncertain significance (Jun 07, 2023)2559287
3-149572888-T-C not specified Uncertain significance (Nov 15, 2021)3190923
3-149572932-T-C not specified Uncertain significance (Sep 20, 2023)3190922
3-149572947-G-A Uncertain significance (Oct 01, 2022)2654221
3-149572956-A-G not specified Uncertain significance (Jan 23, 2023)2457854
3-149572959-G-A not specified Uncertain significance (Jan 24, 2024)3190921
3-149572994-T-C not specified Uncertain significance (Oct 26, 2022)2319888
3-149656960-T-C Uncertain significance (Mar 01, 2022)2654222
3-149656991-G-A not specified Uncertain significance (Jan 29, 2024)3190920
3-149657017-C-T not specified Uncertain significance (Mar 29, 2022)2280602
3-149657083-C-A not specified Uncertain significance (May 28, 2024)3333332
3-149657111-T-C not specified Uncertain significance (Apr 26, 2023)2541241

GnomAD

Source: gnomAD

GeneTypeBio TypeTranscript Coding Exons Length
WWTR1protein_codingprotein_codingENST00000465804 6219480
pLI Probability
LOF Intolerant
pRec Probability
LOF Recessive
Individuals with
no LOFs
Individuals with
Homozygous LOFs
Individuals with
Heterozygous LOFs
Defined p
0.9390.0609125742031257450.0000119
Z-Score Observed Expected Observed/Expected Mutation Rate Total Possible in Transcript
Missense1.121802270.7920.00001152618
Missense in Polyphen4274.2060.56599862
Synonymous-0.009929493.91.000.00000499787
Loss of Function3.46217.70.1138.75e-7170

LoF frequencies by population

EthnicitySum of pLOFs p
African & African-American0.00002890.0000289
Ashkenazi Jewish0.000.00
East Asian0.000.00
Finnish0.000.00
European (Non-Finnish)0.00001760.0000176
Middle Eastern0.000.00
South Asian0.000.00
Other0.000.00

dbNSFP

Source: dbNSFP

Function
FUNCTION: Transcriptional coactivator which acts as a downstream regulatory target in the Hippo signaling pathway that plays a pivotal role in organ size control and tumor suppression by restricting proliferation and promoting apoptosis. The core of this pathway is composed of a kinase cascade wherein STK3/MST2 and STK4/MST1, in complex with its regulatory protein SAV1, phosphorylates and activates LATS1/2 in complex with its regulatory protein MOB1, which in turn phosphorylates and inactivates YAP1 oncoprotein and WWTR1/TAZ. WWTR1 enhances PAX8 and NKX2-1/TTF1-dependent gene activation. Regulates the nuclear accumulation of SMADS and has a key role in coupling them to the transcriptional machinery such as the mediator complex. Regulates embryonic stem-cell self-renewal, promotes cell proliferation and epithelial-mesenchymal transition. {ECO:0000269|PubMed:11118213, ECO:0000269|PubMed:18227151, ECO:0000269|PubMed:18568018, ECO:0000269|PubMed:19010321}.;
Pathway
Hippo signaling pathway - Homo sapiens (human);Hippo signaling pathway - multiple species - Homo sapiens (human);Adipogenesis;RUNX2 regulates osteoblast differentiation;RUNX2 regulates bone development;Transcriptional regulation by RUNX2;Signal Transduction;Gene expression (Transcription);Generic Transcription Pathway;RNA Polymerase II Transcription;YAP1- and WWTR1 (TAZ)-stimulated gene expression;SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription;TGF_beta_Receptor;Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer;Signaling by Hippo;Signaling by TGF-beta Receptor Complex;Signaling by TGF-beta family members (Consensus)

Recessive Scores

pRec
0.104

Intolerance Scores

loftool
0.303
rvis_EVS
0.13
rvis_percentile_EVS
63

Haploinsufficiency Scores

pHI
0.644
hipred
Y
hipred_score
0.825
ghis
0.513

Essentials

essential_gene_CRISPR
N
essential_gene_CRISPR2
S
essential_gene_gene_trap
H
gene_indispensability_pred
E
gene_indispensability_score
0.973

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium

Mouse Genome Informatics

Gene name
Wwtr1
Phenotype
liver/biliary system phenotype; respiratory system phenotype; behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan); cardiovascular system phenotype (the observable morphological and physiological characteristics of the mammalian heart, blood vessels, or circulatory system that are manifested through development and lifespan); reproductive system phenotype; mortality/aging (the observable characteristics related to the ability of a mammalian organism to live and age that are manifested throughout development and life span); digestive/alimentary phenotype; renal/urinary system phenotype; skeleton phenotype; homeostasis/metabolism phenotype; immune system phenotype; cellular phenotype; endocrine/exocrine gland phenotype; adipose tissue phenotype (the observable morphological and physiological characteristics of mammalian fat tissue that are manifested through development and lifespan); growth/size/body region phenotype; muscle phenotype;

Zebrafish Information Network

Gene name
wwtr1
Affected structure
compact layer of ventricle
Phenotype tag
abnormal
Phenotype quality
oblique orientation

Gene ontology

Biological process
negative regulation of transcription by RNA polymerase II;osteoblast differentiation;tissue homeostasis;negative regulation of protein phosphorylation;heart process;regulation of transcription, DNA-templated;transcription initiation from RNA polymerase II promoter;negative regulation of protein kinase activity;positive regulation of cell population proliferation;positive regulation of epithelial to mesenchymal transition;protein ubiquitination;stem cell division;SCF-dependent proteasomal ubiquitin-dependent protein catabolic process;glomerulus development;multicellular organism growth;hippo signaling;negative regulation of fat cell differentiation;positive regulation of transcription by RNA polymerase II;mesenchymal cell differentiation;cilium assembly;regulation of SMAD protein signal transduction;kidney morphogenesis;regulation of metanephric nephron tubule epithelial cell differentiation;negative regulation of canonical Wnt signaling pathway
Cellular component
nucleus;nucleoplasm;transcription factor complex;cytoplasm;cytosol;nuclear body
Molecular function
transcription coactivator activity;transcription corepressor activity;protein binding;protein homodimerization activity