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Aliases for CNP Gene

Aliases for CNP Gene

  • 2',3'-Cyclic Nucleotide 3' Phosphodiesterase 2 3
  • CNPase 3 4
  • 2, 3 Cyclic Nucleotide 3 Phosphohydrolase 3
  • 2,3-Cyclic-Nucleotide 3-Phosphodiesterase 3
  • 2,3-Cyclic Nucleotide 3 Phosphodiesterase 5
  • EC 4
  • CNP1 3

External Ids for CNP Gene

Previous GeneCards Identifiers for CNP Gene

  • GC17P039672
  • GC17P042274
  • GC17P040027
  • GC17P040491
  • GC17P037372
  • GC17P040118
  • GC17P035884

Summaries for CNP Gene

GeneCards Summary for CNP Gene

CNP (2',3'-Cyclic Nucleotide 3' Phosphodiesterase) is a Protein Coding gene. Diseases associated with CNP include Isolated Optic Neuritis and Multiple Sclerosis. Among its related pathways are Neuroscience and Glial Cell Differentiation. Gene Ontology (GO) annotations related to this gene include RNA binding and cyclic nucleotide binding.

UniProtKB/Swiss-Prot for CNP Gene

  • May participate in RNA metabolism in the myelinating cell, CNP is the third most abundant protein in central nervous system myelin.

Gene Wiki entry for CNP Gene

Additional gene information for CNP Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CNP Gene

Genomics for CNP Gene

GeneHancer (GH) Regulatory Elements for CNP Gene

Promoters and enhancers for CNP Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J041965 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 650.7 +0.2 157 3.5 HDGF PKNOX1 ZFP64 ARID4B SIN3A DMAP1 YY1 ZNF207 ZNF143 SP3 CNP PIR42788 GC17P041973 GC17P041968 NT5C3B ENSG00000267758 NKIRAS2 DNAJC7 ZNF385C DHX58
GH17J042128 Enhancer 1.4 Ensembl ENCODE dbSUPER 23.7 +166.2 166246 8.4 HDGF FOXA2 ARNT MLX ARID4B SIN3A DMAP1 YY1 SLC30A9 SP5 DHX58 CNP HSPB9 CNTD1 NBR2 RETREG3 RAB5C KCNH4 HCRT ZNF385C
GH17J042015 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 11.7 +50.6 50563 2.9 HDGF PKNOX1 SMAD1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B DNAJC7 ENSG00000267758 RETREG3 CNTNAP1 ENSG00000259623 STAT5A ACLY NAGLU ENSG00000266962 NT5C3B
GH17J042110 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 11.6 +145.7 145661 3.3 HDGF HDAC1 ARID4B IRF4 RAD21 YY1 ZNF335 ZNF207 BCLAF1 RUNX3 DHX58 PIR51780 GC17P042116 CNP KCNH4 HCRT RAB5C IFI35 AOC4P KAT2A
GH17J041649 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 13.3 -312.1 -312095 9.8 HDGF ARNT ZNF133 NEUROD1 YBX1 BRCA1 TCF12 GLIS2 ZNF143 ZNF207 ENSG00000267758 JUP HSD17B1 DHX58 GHDC ENSG00000259623 KRT14 CNP PSMC3IP RETREG3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CNP on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CNP gene promoter:
  • E47
  • HNF-4alpha1
  • p53
  • HNF-4alpha2
  • MyoD
  • C/EBPbeta
  • Tal-1
  • LUN-1

Genomic Locations for CNP Gene

Genomic Locations for CNP Gene
10,996 bases
Plus strand
10,996 bases
Plus strand

Genomic View for CNP Gene

Genes around CNP on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for CNP Gene

Proteins for CNP Gene

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

    Protein Symbol:
    Recommended name:
    2,3-cyclic-nucleotide 3-phosphodiesterase
    Protein Accession:

    Protein attributes for CNP Gene

    421 amino acids
    Molecular mass:
    47579 Da
    Quaternary structure:
    • Exists as monomers and homodimers.

    Three dimensional structures from OCA and Proteopedia for CNP Gene

    Alternative splice isoforms for CNP Gene


neXtProt entry for CNP Gene

Post-translational modifications for CNP Gene

  • Ubiquitination at Lys275, Lys261, posLast=217217, Lys162, posLast=8787, and posLast=1515
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CNP Gene

Domains & Families for CNP Gene

Gene Families for CNP Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for CNP Gene

Suggested Antigen Peptide Sequences for CNP Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the 2H phosphoesterase superfamily. CNPase family.
  • Belongs to the 2H phosphoesterase superfamily. CNPase family.
genes like me logo Genes that share domains with CNP: view

Function for CNP Gene

Molecular function for CNP Gene

UniProtKB/Swiss-Prot Function:
May participate in RNA metabolism in the myelinating cell, CNP is the third most abundant protein in central nervous system myelin.
UniProtKB/Swiss-Prot CatalyticActivity:
Nucleoside 2,3-cyclic phosphate + H(2)O = nucleoside 2-phosphate.
GENATLAS Biochemistry:
2,3 cyclic nucleotide 3phosphohydrolase,myelin associated,marker of oligodendrocytes and Schwann cells

Enzyme Numbers (IUBMB) for CNP Gene

Phenotypes From GWAS Catalog for CNP Gene

Gene Ontology (GO) - Molecular Function for CNP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0004113 2,3-cyclic-nucleotide 3-phosphodiesterase activity IBA,IEA --
GO:0016787 hydrolase activity IEA --
GO:0030551 cyclic nucleotide binding IEA --
genes like me logo Genes that share ontologies with CNP: view
genes like me logo Genes that share phenotypes with CNP: view

Animal Models for CNP Gene

MGI Knock Outs for CNP:
  • Cnp Cnp<tm1(cre)Kan>

Animal Model Products

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CNP Gene

Localization for CNP Gene

Subcellular locations from UniProtKB/Swiss-Prot for CNP Gene

Membrane; Lipid-anchor. Melanosome. Note=Firmly bound to membrane structures of brain white matter. Identified by mass spectrometry in melanosome fractions from stage I to stage IV.

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 CNP gene
Compartment Confidence
extracellular 5
cytoskeleton 5
mitochondrion 4
plasma membrane 3
nucleus 3
cytosol 3

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (4)
  • Nucleus (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CNP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IDA 12379507
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IDA 12379507
GO:0005741 mitochondrial outer membrane IEA --
genes like me logo Genes that share ontologies with CNP: view

Pathways & Interactions for CNP Gene

genes like me logo Genes that share pathways with CNP: view

Pathways by source for CNP Gene

1 Cell Signaling Technology pathway for CNP Gene

Gene Ontology (GO) - Biological Process for CNP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000226 microtubule cytoskeleton organization IEA --
GO:0007268 chemical synaptic transmission TAS 1322358
GO:0007409 axonogenesis IEA --
GO:0007568 aging IEA --
GO:0008344 adult locomotory behavior IEA --
genes like me logo Genes that share ontologies with CNP: view

No data available for SIGNOR curated interactions for CNP Gene

Drugs & Compounds for CNP Gene

(18) Drugs for CNP Gene - From: ClinicalTrials, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Dopamine Approved Pharma Full agonist, Agonist 4008
Risperidone Approved, Investigational Pharma Antagonist, Inverse agonist SR-2A inhibitor 498
Water Approved Pharma 0
2'-cytidylic acid Experimental Pharma 0
Serotonin Investigational Nutra 3755

(12) Additional Compounds for CNP Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Adenosine 2',3'-cyclic phosphate
  • 2',3'-CAMP
  • 2',3'-Cyclic adenosine monophosphate
  • Adenosine cyclic 2',3'-monophosphate
  • Cyclic 2',3'-(hydrogen phosphate)-adenosine
  • Cyclic 2',3'-AMP
Adenosine 2'-phosphate
  • 2'-Adenylic acid
  • Adenosine-2'-monophosphate
  • AMP 2'-Phosphate
  • 2'-AMP
  • 2'-Adenosine monophosphate
Cytidine 2',3'-cyclic phosphate
  • 2',3' Cyclic CMP
  • 2',3' Cyclic-CMP
  • Cyclic(2',3')-CMP
  • Cytidine-2',3'-cyclophosphate
Guanosine 2',3'-cyclic phosphate
  • Cyclic guanosine 2',3'-monophosphate
  • Guanosine 2',3'-cyclic monophosphate
  • Guanosine cyclic 2',3'-(hydrogen phosphate)
  • Guanosine cyclic-2',3'-monophosphate
  • O(2'),O(3')-Hydroxyphosphoryl-guanosine
Inosine 2',3'-cyclic phosphate
  • 2',3' Cyclic imp
  • Inosine cyclic 2',3'-(hydrogen phosphate)
  • Inosine cyclic 2',3'-monophosphate
  • Inosine cyclic 2,3 monophosphate
  • Inosine cyclic-2',3'-monophosphate
genes like me logo Genes that share compounds with CNP: view

Transcripts for CNP Gene

mRNA/cDNA for CNP Gene

Unigene Clusters for CNP Gene

2,3-cyclic nucleotide 3 phosphodiesterase:
Representative Sequences:

Clone Products

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

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c · 7d · 7e · 7f ^ 8 ^ 9a · 9b ^ 10a · 10b · 10c · 10d
SP1: - - - - - - -
SP2: - - - - - - -
SP3: - - - - - - - - - - - - -
SP4: - - -
SP5: -
SP6: - - - - -
SP7: - -
SP8: - - - - -
SP9: - - - -
SP10: - - -
SP11: - -

Relevant External Links for CNP Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CNP Gene

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

mRNA differential expression in normal tissues according to GTEx for CNP Gene

This gene is overexpressed in Brain - Spinal cord (cervical c-1) (x9.5) and Brain - Substantia nigra (x5.3).

Protein differential expression in normal tissues from HIPED for CNP Gene

This gene is overexpressed in Frontal cortex (23.2), Brain (19.9), and Spinal cord (19.9).

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

Protein tissue co-expression partners for CNP Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CNP Gene:


SOURCE GeneReport for Unigene cluster for CNP Gene:


Evidence on tissue expression from TISSUES for CNP Gene

  • Nervous system(5)
  • Skin(4.8)
  • Liver(4.3)
  • Kidney(3.9)
  • Eye(3)
genes like me logo Genes that share expression patterns with CNP: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CNP Gene

Orthologs for CNP Gene

This gene was present in the common ancestor of animals.

Orthologs for CNP Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CNP 34 33
  • 99.84 (n)
(Canis familiaris)
Mammalia CNP 34 33
  • 90.29 (n)
(Bos Taurus)
Mammalia CNP 34 33
  • 87.67 (n)
(Rattus norvegicus)
Mammalia Cnp 33
  • 86.35 (n)
(Mus musculus)
Mammalia Cnp 16 34 33
  • 85.63 (n)
(Monodelphis domestica)
Mammalia CNP 34
  • 63 (a)
(Gallus gallus)
Aves CNP 34 33
  • 69.38 (n)
(Anolis carolinensis)
Reptilia CNP 34
  • 65 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia cnp 33
  • 61.63 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.8885 33
(Danio rerio)
Actinopterygii cnp 34 34
  • 31 (a)
(Caenorhabditis elegans)
Secernentea F26A1.14 34
  • 31 (a)
Species where no ortholog for CNP was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CNP Gene

Gene Tree for CNP (if available)
Gene Tree for CNP (if available)
Evolutionary constrained regions (ECRs) for CNP: view image

Paralogs for CNP Gene

No data available for Paralogs for CNP Gene

Variants for CNP Gene

Sequence variations from dbSNP and Humsavar for CNP Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000096123 -- 41,967,975(+) G/A intron_variant
rs1000688978 -- 41,969,266(+) C/T intron_variant
rs1001208996 -- 41,969,586(+) C/T intron_variant
rs1001796470 -- 41,975,884(+) G/A 3_prime_UTR_variant, genic_downstream_transcript_variant
rs1001870381 -- 41,972,351(+) A/G intron_variant

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

Variant ID Type Subtype PubMed ID
nsv1146669 OTHER inversion 26484159
nsv2056 CNV insertion 18451855
nsv509658 CNV insertion 20534489
nsv953897 CNV deletion 24416366

Variation tolerance for CNP Gene

Residual Variation Intolerance Score: 22% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.93; 35.85% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CNP Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

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

Disorders for CNP Gene

MalaCards: The human disease database

(8) MalaCards diseases for CNP Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
isolated optic neuritis
  • ion
multiple sclerosis
  • multiple sclerosis, susceptibility to
niemann-pick disease, type a
  • sphingomyelin lipidosis
  • oligodendroglial neoplasm
mannosidosis, beta a, lysosomal
  • mansb
- elite association - COSMIC cancer census association via MalaCards
Search CNP in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CNP

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with CNP: view

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

Publications for CNP Gene

  1. No relationship between 2',3'-cyclic nucleotide 3'-phosphodiesterase and schizophrenia in the Chinese Han population: an expression study and meta-analysis. (PMID: 19348671) Che R … Shi Y (BMC medical genetics 2009) 3 22 44 58
  2. A family-based association study of the myelin-associated glycoprotein and 2',3'-cyclic nucleotide 3'-phosphodiesterase genes with schizophrenia. (PMID: 18496213) Voineskos AN … Kennedy JL (Psychiatric genetics 2008) 3 22 44 58
  3. Case-control association study of the 2',3'-cyclic nucleotide 3'-phosphodiesterase (CNP) gene and schizophrenia in the Han Chinese population. (PMID: 17306456) Tang F … Zhang D (Neuroscience letters 2007) 3 22 44 58
  4. The 2',3'-cyclic nucleotide 3'-phosphodiesterase and oligodendrocyte lineage transcription factor 2 genes do not appear to be associated with schizophrenia in the Japanese population. (PMID: 17010574) Usui H … Ozaki N (Schizophrenia research 2006) 3 22 44 58
  5. Crystal structure of the catalytic fragment of human brain 2',3'-cyclic-nucleotide 3'-phosphodiesterase. (PMID: 15713463) Sakamoto Y … Nakamura KT (Journal of molecular biology 2005) 3 4 22 58

Products for CNP Gene

Sources for CNP Gene

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