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 par... See more...

Aliases for NOMO3 Gene

Aliases for NOMO3 Gene

  • NODAL Modulator 3 2 3 5
  • Nodal Modulator 3 3 4
  • PM5 Protein 3 3 4
  • PM5 Protein, Middle Copy 3
  • NOMO3 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. Gene Ontology (GO) annotations related to this gene include carbohydrate binding. An important paralog of this gene is NOMO1.

UniProtKB/Swiss-Prot Summary for NOMO3 Gene

Additional gene information for NOMO3 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for NOMO3 Gene

Genomics for NOMO3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for NOMO3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH16J016232 Promoter/Enhancer 1.3 EPDnew Ensembl ENCODE 600.7 +0.9 873 2.4 ZNF143 ZSCAN4 CTCF PKNOX1 MNT NRF1 ZBTB26 ELF1 SIN3A IKZF1 NOMO3 PKD1P2 ENSG00000263029 lnc-ABCC6-3 ENSG00000183889
GH16J016197 Enhancer 0.7 Ensembl 16.6 -34.7 -34727 1.2 ZNF512 IKZF1 NFRKB PHB2 RBFOX2 TCF12 FOXK2 MNT HES1 EGR1 PKD1P2 NOMO3 ABCC6 HSALNG0109850 piR-50437-241 ABCC1
GH16J016149 Enhancer 0.9 ENCODE 4.8 -82.2 -82151 1.7 HNRNPL GATAD2A NFKBIZ RCOR2 POLR2A FOXA1 RBFOX2 RXRB IRF2 SP1 NOMO3 BMERB1 piR-50789 lnc-FOPNL-3 ABCC6 ABCC1
GH16J016092 Enhancer 0.8 Ensembl ENCODE dbSUPER 5 -139.0 -138988 1.9 KDM1A ZNF316 MAFF MAFK ZFHX2 BCOR ZMYM3 RPL17P40 lnc-ABCC6-4 NOMO3 piR-57133-223 ABCC6 ABCC1
GH16J015826 Enhancer 0.9 Ensembl ENCODE dbSUPER 4.4 -403.0 -402999 6.1 ZNF512 KDM1A KLF9 HDAC2 NR2F2 BCOR SPI1 ZNF768 ADNP ZNF664 piR-57460-242 MYH11 RNU6-213P CEP20 NPIPP1 PKD1P2 ENSG00000263335 NOMO3 NDE1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NOMO3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for NOMO3

Top Transcription factor binding sites by QIAGEN in the NOMO3 gene promoter:
  • AML1a
  • c-Ets-1
  • Elk-1
  • GATA-1
  • GR
  • GR-alpha
  • Lmo2
  • Sp1

Genomic Locations for NOMO3 Gene

Genomic Locations for NOMO3 Gene
chr16:16,232,528-16,294,811
(GRCh38/hg38)
Size:
62,284 bases
Orientation:
Plus strand
chr16:16,326,352-16,388,668
(GRCh37/hg19)
Size:
62,317 bases
Orientation:
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:
    P69849-NOMO3_HUMAN
    Recommended name:
    Nodal modulator 3
    Protein Accession:
    P69849

    Protein attributes for NOMO3 Gene

    Size:
    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, Asn218, Asn369, and Asn618
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • NOMO3_HUMAN (1574)

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 intracellular proteins
  • Predicted membrane proteins

Protein Domains for NOMO3 Gene

InterPro:
Blocks:
  • Cna B-type
ProtoNet:

Suggested Antigen Peptide Sequences for NOMO3 Gene

GenScript: Design optimal peptide antigens:
  • pM5 protein 3 (NOMO3_HUMAN)
  • NOMO3 protein (Q1LZN2_HUMAN)
genes like me logo Genes that share domains with NOMO3: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for NOMO3 Gene

Function for NOMO3 Gene

Molecular function for NOMO3 Gene

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

Phenotypes From GWAS Catalog for NOMO3 Gene

Gene Ontology (GO) - Molecular Function for NOMO3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005515 protein binding IPI 22046132
GO:0030246 carbohydrate binding IEA --
genes like me logo Genes that share ontologies with NOMO3: view
genes like me logo Genes that share phenotypes with NOMO3: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NOMO3

No data available for Enzyme Numbers (IUBMB) , 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

COMPARTMENTS
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
endoplasmic reticulum 3
plasma membrane 2
extracellular 1
nucleus 1
cytosol 1
golgi apparatus 0
peroxisome 0

Gene Ontology (GO) - Cellular Components for NOMO3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005789 endoplasmic reticulum membrane IBA 21873635
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

PathCards logo

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

1 REFSEQ mRNAs :
18 NCBI additional mRNA sequence :
17 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NOMO3

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

No ASD Table

Relevant External Links for NOMO3 Gene

GeneLoc Exon Structure for
NOMO3

Expression for NOMO3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and 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, MaxQB, and MOPED for NOMO3 Gene



Protein tissue co-expression partners for NOMO3 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for NOMO3

Evidence on tissue expression from TISSUES for NOMO3 Gene

  • Adrenal gland(2.7)
  • Skin(2.3)
  • Thyroid gland(2.3)
  • Muscle(2.2)
  • Lymph node(2.2)
  • Intestine(2.1)
  • Nervous system(2)
genes like me logo Genes that share expression patterns with NOMO3: view

Primer Products

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
Cow
(Bos Taurus)
Mammalia -- 31
  • 95 (a)
OneToMany
NOMO1 30
  • 88.51 (n)
Dog
(Canis familiaris)
Mammalia -- 31
  • 95 (a)
OneToMany
NOMO1 30
  • 90 (n)
Chimpanzee
(Pan troglodytes)
Mammalia -- 31
  • 95 (a)
OneToMany
Platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 87 (a)
OneToMany
Rat
(Rattus norvegicus)
Mammalia Nomo1 30
  • 86.82 (n)
Mouse
(Mus musculus)
Mammalia Nomo1 30 17 31
  • 86.37 (n)
OneToMany
Chicken
(Gallus gallus)
Aves -- 31
  • 86 (a)
OneToMany
PM5 30
  • 77.23 (n)
Lizard
(Anolis carolinensis)
Reptilia -- 31
  • 86 (a)
OneToMany
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia nomo3 30
  • 72.13 (n)
Zebrafish
(Danio rerio)
Actinopterygii nomo 30 31
  • 66.69 (n)
OneToMany
Fruit Fly
(Drosophila melanogaster)
Insecta CG1371 30 31
  • 46.05 (n)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005856 30
  • 45.16 (n)
Worm
(Caenorhabditis elegans)
Secernentea nra-4 30 31
  • 43.06 (n)
OneToMany
Thale Cress
(Arabidopsis thaliana)
eudicotyledons AT3G62360 30
  • 45.03 (n)
Rice
(Oryza sativa)
Liliopsida Os01g0300600 30
  • 45.37 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.4870 31
  • 37 (a)
OneToMany
Species where no ortholog for NOMO3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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 Vase (Ciona intestinalis)
  • 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

ENSEMBL:
Gene Tree for NOMO3 (if available)
TreeFam:
Gene Tree for NOMO3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for NOMO3: view image

Paralogs for NOMO3 Gene

Paralogs for NOMO3 Gene

(3) SIMAP similar genes for NOMO3 Gene using alignment to 9 proteins:

  • NOMO3_HUMAN
  • F5H826_HUMAN
  • I3L0Q6_HUMAN
  • I3L1G6_HUMAN
  • I3L2X2_HUMAN
  • I3L516_HUMAN
  • I3NI42_HUMAN
  • J3KN36_HUMAN
  • Q1LZN2_HUMAN
genes like me logo Genes that share paralogs with NOMO3: view

Variants for NOMO3 Gene

Additional dbSNP identifiers (rs#s) for NOMO3 Gene

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

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

Variation tolerance for NOMO3 Gene

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

Additional Variant Information for NOMO3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NOMO3

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for NOMO3 Gene

Disorders for NOMO3 Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
pseudoxanthoma elasticum
  • pxe
superficial urinary bladder cancer
  • superficial urinary bladder carcinoma
afferent loop syndrome
ulcerative stomatitis
  • aphthous stomatitis
splenic abscess
- elite association - COSMIC cancer census association via MalaCards
Search NOMO3 in MalaCards View complete list of genes associated with diseases
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. The sequence and analysis of duplication-rich human chromosome 16. (PMID: 15616553) Martin J … Pennacchio LA (Nature 2004) 3 4
  2. Nicalin and its binding partner Nomo are novel Nodal signaling antagonists. (PMID: 15257293) Haffner C … Haass C (The EMBO journal 2004) 2 3
  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
  4. LMBR1L regulates lymphopoiesis through Wnt/β-catenin signaling. (PMID: 31073040) Choi JH … Beutler B (Science (New York, N.Y.) 2019) 3
  5. Transmembrane insertases and N-glycosylation critically determine synthesis, trafficking, and activity of the nonselective cation channel TRPC6. (PMID: 31266804) Talbot BE … Schlondorff JS (The Journal of biological chemistry 2019) 3

Products for NOMO3 Gene

Sources for NOMO3 Gene