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Aliases for NOMO3 Gene

Aliases for NOMO3 Gene

  • Nodal Modulator 3 2 3
  • PM5 Protein 3 3 4
  • PM5 Protein, Middle Copy 3
  • NODAL Modulator 3 5
  • Nomo 3

External Ids for NOMO3 Gene

Previous GeneCards Identifiers for NOMO3 Gene

  • GC16P014835
  • GC16P016233
  • GC16U900522
  • GC16P016326

Summaries for NOMO3 Gene

Entrez Gene Summary for NOMO3 Gene

  • This gene encodes a protein originally thought to be related to the collagenase gene family. This gene is one of three highly similar genes in a duplicated region on the short arm of chromosome 16. These three genes encode closely related proteins that may have the same function. The protein encoded by one of these genes has been identified as part of a protein complex that participates in the Nodal signaling pathway during vertebrate development. Mutations in ABCC6, which is located nearby, rather than mutations in this gene are associated with pseudoxanthoma elasticum. [provided by RefSeq, Jul 2008]

GeneCards Summary for NOMO3 Gene

NOMO3 (Nodal Modulator 3) is a Protein Coding gene. Diseases associated with NOMO3 include Pseudoxanthoma Elasticum and Superficial Urinary Bladder Cancer. GO annotations related to this gene include carbohydrate binding. An important paralog of this gene is NOMO2.

UniProtKB/Swiss-Prot for NOMO3 Gene

  • May antagonize Nodal signaling.

Additional gene information for NOMO3 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NOMO3 Gene

Genomics for NOMO3 Gene

Regulatory Elements for NOMO3 Gene

Enhancers for NOMO3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH16H016149 1.1 Ensembl ENCODE 4.8 -82.1 -82118 1.7 ELF3 FOXA2 ARID4B RARA YY1 MIXL1 THAP11 PAF1 ZHX2 NFYC NOMO3 C16orf45 PIR44788 GC16P016190
GH16H015826 1.2 Ensembl ENCODE dbSUPER 4.4 -404.1 -404091 3.9 BCOR ZNF133 ZMYM3 NR2F2 ZNF664 HDAC2 ADNP ZNF512 KLF9 ZNF24 MYH11 RNU6-213P FOPNL NPIPP1 ENSG00000227827 ENSG00000263335 NOMO3 ENSG00000280429
GH16H016206 0.9 Ensembl ENCODE 5.4 -25.0 -24992 2.6 PKNOX1 SAP130 TAL1 CEBPG RARA NFIL3 TCF12 RAD51 IKZF1 CEBPA NOMO3 LOC105371100 GC16P016190
GH16H016092 0.8 ENCODE dbSUPER 5 -139.0 -138956 1.9 BCOR ZFHX2 ZNF316 ZMYM3 KDM1A MAFK NOMO3 RPL17P40 GC16P016010
GH16H016232 0.7 ENCODE 0.7 +0.0 4 0.2 CTCF DRAP1 PKNOX1 MXI1 RB1 SAP130 ARID4B SIN3A GATAD1 ZNF143 NOMO3 ENSG00000263029
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around NOMO3 on UCSC Golden Path with GeneCards custom track

Promoters for NOMO3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

Genomic Locations for NOMO3 Gene

Genomic Locations for NOMO3 Gene
62,320 bases
Plus strand

Genomic View for NOMO3 Gene

Genes around NOMO3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NOMO3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NOMO3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NOMO3 Gene

Proteins for NOMO3 Gene

  • Protein details for NOMO3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Nodal modulator 3
    Protein Accession:

    Protein attributes for NOMO3 Gene

    1222 amino acids
    Molecular mass:
    134134 Da
    Quaternary structure:
    No Data Available

neXtProt entry for NOMO3 Gene

Post-translational modifications for NOMO3 Gene

  • Glycosylation at Asn50, posLast=218218, and posLast=618618
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for NOMO3 Gene

Domains & Families for NOMO3 Gene

Gene Families for NOMO3 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Predicted secreted proteins

Protein Domains for NOMO3 Gene

Suggested Antigen Peptide Sequences for NOMO3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with NOMO3: view

No data available for UniProtKB/Swiss-Prot for NOMO3 Gene

Function for NOMO3 Gene

Molecular function for NOMO3 Gene

UniProtKB/Swiss-Prot Function:
May antagonize Nodal signaling.

Gene Ontology (GO) - Molecular Function for NOMO3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0030246 carbohydrate binding IEA --
genes like me logo Genes that share ontologies with NOMO3: view

Phenotypes for NOMO3 Gene

GenomeRNAi human phenotypes for NOMO3:
genes like me logo Genes that share phenotypes with NOMO3: view

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NOMO3 Gene

Localization for NOMO3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NOMO3 Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NOMO3 gene
Compartment Confidence
plasma membrane 2
extracellular 2
peroxisome 1
nucleus 1
endoplasmic reticulum 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for NOMO3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with NOMO3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for NOMO3 Gene

Pathways & Interactions for NOMO3 Gene

SuperPathways for NOMO3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for NOMO3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with NOMO3: view

No data available for Pathways by source and SIGNOR curated interactions for NOMO3 Gene

Drugs & Compounds for NOMO3 Gene

No Compound Related Data Available

Transcripts for NOMO3 Gene

mRNA/cDNA for NOMO3 Gene

(3) REFSEQ mRNAs :
(17) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NOMO3 Gene

No ASD Table

Relevant External Links for NOMO3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NOMO3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NOMO3 Gene

Protein differential expression in normal tissues from HIPED for NOMO3 Gene

This gene is overexpressed in Heart (39.0) and Brain (30.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NOMO3 Gene

Protein tissue co-expression partners for NOMO3 Gene

NURSA nuclear receptor signaling pathways regulating expression of NOMO3 Gene:


Evidence on tissue expression from TISSUES for NOMO3 Gene

  • Adrenal gland(2.4)
genes like me logo Genes that share expression patterns with NOMO3: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for NOMO3 Gene

Orthologs for NOMO3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for NOMO3 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia -- 34
  • 95 (a)
NOMO1 33
  • 88.51 (n)
(Canis familiaris)
Mammalia -- 34
  • 95 (a)
NOMO1 33
  • 90 (n)
(Pan troglodytes)
Mammalia -- 34
  • 95 (a)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 87 (a)
(Rattus norvegicus)
Mammalia Nomo1 33
  • 86.82 (n)
(Mus musculus)
Mammalia Nomo1 33 16 34
  • 86.37 (n)
(Gallus gallus)
Aves -- 34
  • 86 (a)
PM5 33
  • 77.23 (n)
(Anolis carolinensis)
Reptilia -- 34
  • 86 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia nomo3 33
  • 72.13 (n)
(Danio rerio)
Actinopterygii nomo 33 34
  • 66.69 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG1371 33 34
  • 46.05 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005856 33
  • 45.16 (n)
(Caenorhabditis elegans)
Secernentea nra-4 34 33
  • 43.06 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G62360 33
  • 45.03 (n)
(Oryza sativa)
Liliopsida Os01g0300600 33
  • 45.37 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.4870 34
  • 37 (a)
Species where no ortholog for NOMO3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for NOMO3 Gene

Gene Tree for NOMO3 (if available)
Gene Tree for NOMO3 (if available)

Paralogs for NOMO3 Gene

Paralogs for NOMO3 Gene

genes like me logo Genes that share paralogs with NOMO3: view

Variants for NOMO3 Gene

Sequence variations from dbSNP and Humsavar for NOMO3 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs1000052553 -- 16,269,149(+) TATTG(C/T)TTCCT intron-variant
rs1000129157 -- 16,267,256(+) GTTCA(A/G)CCTGC intron-variant
rs1000157373 -- 16,232,500(+) CTGGG(G/T)CTGTG upstream-variant-2KB
rs1000332914 -- 16,242,246(+) GCAAG(C/T)ACGTG intron-variant
rs1000445255 -- 16,232,176(+) ACCCA(C/T)CTCAG upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for NOMO3 Gene

Variant ID Type Subtype PubMed ID
nsv984274 CNV duplication 23825009
nsv984273 CNV duplication 23825009
nsv9363 CNV loss 18304495
nsv9362 CNV loss 18304495
nsv509599 CNV insertion 20534489
nsv469785 CNV gain+loss 16826518
nsv457428 CNV gain 19166990
nsv435664 CNV deletion 17901297
nsv428319 CNV loss 18775914
nsv1144760 CNV deletion 24896259
nsv1143812 CNV deletion 24896259
nsv1125134 CNV deletion 24896259
nsv1049647 CNV gain+loss 25217958
nsv1048002 CNV gain 25217958
nsv1047898 CNV loss 25217958
esv3570398 CNV gain 25503493
esv33614 CNV gain+loss 17666407
esv28069 CNV gain+loss 19812545
esv2762276 CNV gain+loss 21179565
esv2758633 CNV gain+loss 17122850
esv2714015 CNV deletion 23290073
dgv4924n54 CNV gain 21841781
dgv2777n100 CNV loss 25217958
dgv2776n100 CNV gain+loss 25217958
dgv2775n100 CNV gain 25217958

Variation tolerance for NOMO3 Gene

Gene Damage Index Score: 6.33; 76.71% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NOMO3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NOMO3 Gene

Disorders for NOMO3 Gene

MalaCards: The human disease database

(2) MalaCards diseases for NOMO3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
pseudoxanthoma elasticum
  • pseudoxanthoma elasticum, modifier of severity of
superficial urinary bladder cancer
  • superficial urinary bladder carcinoma
- elite association - COSMIC cancer census association via MalaCards
Search NOMO3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for NOMO3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with NOMO3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NOMO3 Gene

Publications for NOMO3 Gene

  1. Nicalin and its binding partner Nomo are novel Nodal signaling antagonists. (PMID: 15257293) Haffner C … Haass C (The EMBO journal 2004) 2 3 60
  2. The sequence and analysis of duplication-rich human chromosome 16. (PMID: 15616553) Martin J … Pennacchio LA (Nature 2004) 3 4 60
  3. Genome duplications and other features in 12 Mb of DNA sequence from human chromosome 16p and 16q. (PMID: 10493829) Loftus BJ … Adams MD (Genomics 1999) 3 4 60
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 60

Products for NOMO3 Gene

Sources for NOMO3 Gene

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