Gene Gene information from NCBI Gene database.
Entrez ID 4838
Gene name Nodal growth differentiation factor
Gene symbol NODAL
Synonyms (NCBI Gene)
HTX5
Chromosome 10
Chromosome location 10q22.1
Summary This gene encodes a secreted ligand of the TGF-beta (transforming growth factor-beta) superfamily of proteins. Ligands of this family bind various TGF-beta receptors leading to recruitment and activation of SMAD family transcription factors that regulate
SNPs SNP information provided by dbSNP.
8
SNP ID Visualize variation Clinical significance Consequence
rs104894169 C>T Pathogenic, uncertain-significance Missense variant, coding sequence variant
rs121909283 C>A,T Pathogenic, likely-benign, likely-pathogenic Stop gained, missense variant, coding sequence variant
rs150819707 G>A Not-provided, conflicting-interpretations-of-pathogenicity, likely-benign Coding sequence variant, missense variant
rs555563029 C>T Likely-pathogenic Missense variant, coding sequence variant
rs878855044 C>T Likely-pathogenic Splice donor variant
miRNA miRNA information provided by mirtarbase database.
398
miRTarBase ID miRNA Experiments Reference
MIRT023342 hsa-miR-122-5p Microarray 17612493
MIRT054063 hsa-miR-378a-5p Luciferase reporter assayWestern blot 22454525
MIRT054063 hsa-miR-378a-5p Luciferase reporter assayWestern blot 22454525
MIRT611697 hsa-miR-4438 HITS-CLIP 23824327
MIRT667198 hsa-miR-6858-3p HITS-CLIP 23824327
Transcription factors Transcription factors information provided by TRRUST V2 database.
1
Transcription factor Regulation Reference
NANOG Unknown 23474366
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
96
GO ID Ontology Definition Evidence Reference
GO:0000122 Process Negative regulation of transcription by RNA polymerase II IEA
GO:0001701 Process In utero embryonic development IEA
GO:0001702 Process Gastrulation with mouth forming second IEA
GO:0001704 Process Formation of primary germ layer IEA
GO:0001707 Process Mesoderm formation IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
601265 7865 ENSG00000156574
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q96S42
Protein name Nodal homolog
Protein function Essential for mesoderm formation and axial patterning during embryonic development.
PDB 4N1D
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00019 TGF_beta 246 346 Transforming growth factor beta like domain Domain
Sequence
MHAHCLPFLLHAWWALLQAGAATVATALLRTRGQPSSPSPLAYMLSLYRDPLPRADIIRS
LQAEDVAVDGQNWTFAFDFSFLSQQEDLAWAELRLQLSSPVDLPTEGSLAIEIFHQPKPD
TEQASDSCLERFQMDLFTVTLSQVTFSLGSMVLEVTRPLSKWLKHPGALEKQMSRVAGEC
WPRPPTPPATNVLLMLYSNLSQEQRQLGGSTLLWEAESSWRAQEGQLSWEWGKRHRRHHL
PDRSQLCRKVKFQVDFNLIGWGSWIIYPKQYNAYRCEGECPNPVGEEFHPTNHAYIQSLL
KRYQPHRVPSTCCAPVKTKPLSMLYVDNGRVLLDHHKDMIVEECGC
L
Sequence length 347
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG 
  Cytokine-cytokine receptor interaction
TGF-beta signaling pathway
Signaling pathways regulating pluripotency of stem cells
 
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
20
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Heterotaxy, visceral, 5, autosomal Pathogenic; Likely pathogenic rs772802856, rs2493095831, rs878855044, rs2493085626, rs1564667180, rs1564667617, rs1447874899, rs1564667078, rs1589152470, rs1589152355 RCV001381991
RCV004594649
RCV000231796
RCV004595206
RCV000754877
View all (5 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
NODAL-related disorder Likely pathogenic rs2493087333 RCV003335895
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Visceral heterotaxy Likely pathogenic rs555563029 RCV001824138
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Cervical cancer Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Congenitally corrected transposition of the great arteries Conflicting classifications of pathogenicity ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Heart, malformation of Uncertain significance; Conflicting classifications of pathogenicity ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
HOLOPROSENCEPHALY CTD, Disgenet
CTD, Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Agenesis of corpus callosum Agenesis Of Corpus Callosum HPO_DG
★☆☆☆☆
Found in Text Mining only
Alobar Holoprosencephaly Alobar Holoprosencephaly CTD_human_DG 23264560
★☆☆☆☆
Found in Text Mining only
Alobar Holoprosencephaly Alobar Holoprosencephaly ORPHANET_DG
★☆☆☆☆
Found in Text Mining only
Alobar holoprosencephaly Alobar Holoprosencephaly Orphanet
★☆☆☆☆
Found in Text Mining only
Ambiguous Genitalia Ambiguous Genitalia HPO_DG
★☆☆☆☆
Found in Text Mining only
Arhinencephaly Arrhinencephaly CTD_human_DG 23264560
★☆☆☆☆
Found in Text Mining only
Arthropathy Arthropathy BEFREE 16755236
★☆☆☆☆
Found in Text Mining only
Asthma Asthma HPO_DG
★☆☆☆☆
Found in Text Mining only
Atrial Septal Defects Atrial Septal Defect BEFREE 31570783
★☆☆☆☆
Found in Text Mining only
Atrial Septal Defects Atrial Septal Defect HPO_DG
★☆☆☆☆
Found in Text Mining only