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NOMO3 Gene(Protein Coding)

Nodal Modulator 3

GCID:
GC16P016232
GIFtS:
45
Genes Participants
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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 NOMO1.

UniProtKB/Swiss-Prot for NOMO3 Gene

  • May antagonize Nodal signaling.

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

Genomics for NOMO3 Gene

Products:

  1. Regulatory Element

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
GH16F016201 1 Ensembl ENCODE 19.4 -30.4 -30395 1.8 CTCF EBF1 RAD21 GATA3 ELK1 PRDM10 SRF MTA2 TRIM22 ATF2 NOMO3 ABCC6 LOC105371100 GC16P016190
GH16F016149 1.1 Ensembl ENCODE 4.8 -82.2 -82231 2.0 ELF3 ARID4B ZNF48 RARA YY1 MIXL1 THAP11 PAF1 NFYC REST NOMO3 C16orf45 PIR44788 GC16P016190
GH16F016206 0.9 Ensembl ENCODE 5.3 -24.8 -24795 3.0 ESRRA SAP130 NR2F1 CEBPG RARA ARID1B RAD51 IKZF1 CEBPA NR2F6 NOMO3 LOC105371100 GC16P016190
GH16F016092 0.8 ENCODE 5 -139.0 -138956 1.9 BCOR CTCF ZFP64 ZNF140 ZMYM3 RAD21 ZNF101 ZNF664 ZFHX2 ZNF316 LOC100505915 PKD1P1 RRN3 NPIPA5 PKD1P6 NOMO3 RPL17P40 GC16P016010
GH16F015826 0.9 Ensembl ENCODE 4.4 -404.1 -404091 3.9 BCOR ZNF133 ZMYM3 NR2F2 ZNF664 JUND HDAC2 ADNP ZNF512 KLF9 MYH11 RNU6-213P FOPNL NPIPP1 ENSG00000227827 ENSG00000263335 NOMO3 ENSG00000280429
- 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
ENSR00001799996 505 1601 ELF3 CTCF PKNOX1 SAP130 NRF1 ARID4B SIN3A MXD4 MNT GATAD1

Transcription factor binding sites by QIAGEN in the NOMO3 gene promoter:

Genomic Location for NOMO3 Gene

Chromosome:
16
Start:
16,232,495 bp from pter
End:
16,294,814 bp from pter
Size:
62,320 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 Structure • Gene Density

RefSeq DNA sequence for NOMO3 Gene

Proteins for NOMO3 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • 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

Protein Expression for NOMO3 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for NOMO3 Gene

  • Glycosylation at Asn 50, Asn 218, and Asn 618
  • Modification sites at PhosphoSitePlus

Other Protein References for NOMO3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for NOMO3 Gene

Domains & Families for NOMO3 Gene

Protein Domains for NOMO3 Gene

InterPro:
Blocks:
ProtoNet:

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 Gene Families and UniProtKB/Swiss-Prot for NOMO3 Gene

Function for NOMO3 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

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

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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
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

Pathways & Interactions for NOMO3 Gene

SuperPathways for NOMO3 Gene

PathCards logo More details on SuperPathways for NOMO3
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

Products:

  1. Drug
No Compound Related Data Available

Transcripts for NOMO3 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for NOMO3 Gene

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

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

No ASD Table

Relevant External Links for NOMO3 Gene

GeneLoc Exon Structure for
NOMO3
ECgene alternative splicing isoforms for
NOMO3

Expression for NOMO3 Gene

Products:

  1. Primer

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

mRNA expression in normal human tissues for NOMO3 Gene
mRNA expression by BioGPS for NOMO3 GenemRNA expression by GTEx 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:

NOMO3
genes like me logo Genes that share expression patterns with NOMO3: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt 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 -- 35
  • 95 (a)
 OneToMany
NOMO1 34
  • 88.51 (n)
dog
(Canis familiaris)
 Mammalia -- 35
  • 95 (a)
 OneToMany
NOMO1 34
  • 90 (n)
chimpanzee
(Pan troglodytes)
 Mammalia -- 35
  • 95 (a)
 OneToMany
platypus
(Ornithorhynchus anatinus)
 Mammalia -- 35
  • 87 (a)
 OneToMany
rat
(Rattus norvegicus)
 Mammalia Nomo1 34
  • 86.82 (n)
mouse
(Mus musculus)
 Mammalia Nomo1 34 16 35
  • 86.37 (n)
chicken
(Gallus gallus)
 Aves -- 35
  • 86 (a)
 OneToMany
PM5 34
  • 77.23 (n)
lizard
(Anolis carolinensis)
 Reptilia -- 35
  • 86 (a)
 OneToMany
tropical clawed frog
(Silurana tropicalis)
 Amphibia nomo3 34
  • 72.13 (n)
zebrafish
(Danio rerio)
 Actinopterygii nomo 34 35
  • 66.69 (n)
fruit fly
(Drosophila melanogaster)
 Insecta CG1371 34 35
  • 46.05 (n)
African malaria mosquito
(Anopheles gambiae)
 Insecta AgaP_AGAP005856 34
  • 45.16 (n)
worm
(Caenorhabditis elegans)
 Secernentea nra-4 34 35
  • 43.06 (n)
thale cress
(Arabidopsis thaliana)
 eudicotyledons AT3G62360 34
  • 45.03 (n)
rice
(Oryza sativa)
 Liliopsida Os01g0300600 34
  • 45.37 (n)
sea squirt
(Ciona savignyi)
 Ascidiacea CSA.4870 35
  • 37 (a)
 OneToMany
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

ENSEMBL:
Gene Tree for NOMO3 (if available)
TreeFam:
Gene Tree for NOMO3 (if available)

Paralogs for NOMO3 Gene

Paralogs for NOMO3 Gene

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

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
rs1064357 -- 16,266,017(-) CCTGC(A/G)CTGGA intron-variant
rs111368943 -- 16,244,536(+) TTTTT(A/T)AGATG intron-variant
rs111380118 -- 16,285,173(+) GCAAG(A/G)ACATG intron-variant
rs111577264 -- 16,237,484(+) TTTTC(A/C/G)CTCCA intron-variant
rs111616837 -- 16,266,564(+) CCAGA(A/G)ACACG intron-variant

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
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

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
NOMO3

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:
NOMO3
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. (EMBO J. 2004) 2 3 64
  2. The sequence and analysis of duplication-rich human chromosome 16. (PMID: 15616553) Martin J. … Pennacchio L.A. (Nature 2004) 3 4 64
  3. Genome duplications and other features in 12 Mb of DNA sequence from human chromosome 16p and 16q. (PMID: 10493829) Loftus B.J. … Adams M.D. (Genomics 1999) 3 4 64
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  5. Proteomic Analysis of the EWS-Fli-1 Interactome Reveals the Role of the Lysosome in EWS-Fli-1 Turnover. (PMID: 24999758) Elzi D.J. … Shiio Y. (J. Proteome Res. 2014) 3 64

Products for NOMO3 Gene

Sources for NOMO3 Gene

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