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CDNF Gene

protein-coding   GIFtS: 49
GCID: GC10M014771

Cerebral Dopamine Neurotrophic Factor

(Previous names: arginine-rich, mutated in early stage tumors-like 1)
(Previous symbol: ARMETL1)
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Cerebral Dopamine Neurotrophic Factor1 2
ARMETL11 2 3 5
Conserved Dopamine Neurotrophic Factor1 2 3
Arginine-Rich, Mutated In Early Stage Tumors-Like 11 2
ARMET-Like Protein 12 3

External Ids:    HGNC: 249131   Entrez Gene: 4415492   Ensembl: ENSG000001852677   OMIM: 6112335   UniProtKB: Q49AH03   

Export aliases for CDNF gene to outside databases

Previous GC identifers: GC10M014902 GC10M014861


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for CDNF Gene:
CDNF (cerebral dopamine neurotrophic factor) is a protein-coding gene. Diseases associated with CDNF include cocaine dependence, and cerebritis. GO annotations related to this gene include growth factor activity. An important paralog of this gene is MANF.

UniProtKB/Swiss-Prot: CDNF_HUMAN, Q49AH0
Function: Trophic factor for dopamine neurons. Prevents the 6-hydroxydopamine (6-OHDA)-induced degeneration of
dopaminergic neurons. When administered after 6-OHDA-lesioning, restores the dopaminergic function and prevents
the degeneration of dopaminergic neurons in substantia nigra (By similarity)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000010.11  NC_018921.2  NT_008705.17  
Regulatory elements:
   Search for regulatory transcription factor binding sites for CDNF
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 3): CDNF promoter sequence
   Search Chromatin IP Primers for CDNF

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CDNF


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 10p13   Ensembl cytogenetic band:  10p13   HGNC cytogenetic band: 10p13

CDNF Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CDNF gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M014771:  view genomic region     (about GC identifiers)

Start:
14,861,249 bp from pter      End:
14,880,574 bp from pter
Size:
19,326 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: CDNF_HUMAN, Q49AH0 (See protein sequence)
Recommended Name: Cerebral dopamine neurotrophic factor precursor  
Size: 187 amino acids; 20964 Da
2 PDB 3D structures from and Proteopedia for CDNF:
2LPN (3D)        2W50 (3D)    
Secondary accessions: A2RUU0 B4DVW3
Alternative splicing: 2 isoforms:  Q49AH0-1   Q49AH0-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for CDNF: NX_Q49AH0

Explore proteomics data for CDNF at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See CDNF Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001025125.2  
    ENSEMBL proteins: 
     ENSP00000367703   ENSP00000419395  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    1 InterPro protein domain:
     IPR019345 Armet_prot

    Graphical View of Domain Structure for InterPro Entry Q49AH0

    ProtoNet protein and cluster: Q49AH0

    UniProtKB/Swiss-Prot: CDNF_HUMAN, Q49AH0
    Similarity: Belongs to the ARMET family


    CDNF for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CDNF_HUMAN, Q49AH0
    Function: Trophic factor for dopamine neurons. Prevents the 6-hydroxydopamine (6-OHDA)-induced degeneration of
    dopaminergic neurons. When administered after 6-OHDA-lesioning, restores the dopaminergic function and prevents
    the degeneration of dopaminergic neurons in substantia nigra (By similarity)
    Induction: Not induced by endoplasmic reticulum stress

         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008083growth factor activity IEA--
         
    CDNF for ontologies           About GeneDecksing


    Phenotypes:
         2 GenomeRNAi human phenotypes for CDNF:
     G0/1 arrest  Increased G1 DNA content 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CDNF
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CDNF

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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    CDNF_HUMAN, Q49AH0: Secreted
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    extracellular5
    endoplasmic reticulum2
    nucleus1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region IEA--

    CDNF for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for CDNF
    Interactions:

        Search GeneGlobe Interaction Network for CDNF

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for CDNF



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for CDNF gene: 
    NM_001029954.2  

    Unigene Cluster for CDNF:

    Cerebral dopamine neurotrophic factor
    Hs.559067  [show with all ESTs]
    Unigene Representative Sequence: BC037872
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000378442(uc001inb.1 uc010qbv.1 uc001inc.1) ENST00000378441
    ENST00000467405 ENST00000466269 ENST00000465530
    miRNA
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    Additional mRNA sequence: 

    AK131035.1 BC037872.1 BC133042.1 BC133044.1 BC144619.1 

    5 DOTS entries:

    DT.435105  DT.95320632  DT.121272798  DT.95262524  DT.86848108 

    Selected AceView cDNA sequences (see all 25):

    CK903443 AA018896 BI964826 F31353 AI810745 AI214900 BC037872 AW450272 
    AA885943 AA019552 BQ025443 BG742772 AI807908 BI963176 BG213461 AK131035 
    BM984171 BI464979 BG742840 T68138 AV657190 AA018863 BQ321568 AA019437 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for CDNF    About this scheme

    ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b
    SP1:        -     -     -     -                                             
    SP2:                          -           -                 -               
    SP3:                          -     -     -                                 
    SP4:                                -     -                                 


    ECgene alternative splicing isoforms for CDNF

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    CDNF expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTTTTTGTGT
    CDNF Expression
    About this image

    CDNF Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CDNF Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.559067

    UniProtKB/Swiss-Prot: CDNF_HUMAN, Q49AH0
    Tissue specificity: Widely expressed in neuronal and non-neuronal tissues. In the brain, highest levels in the
    optic nerve and corpus callosum

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    In Situ
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of animals.

    Orthologs for CDNF gene from Selected species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cdnf1 , 5 cerebral dopamine neurotrophic factor1, 5 82.89(n)1
    77.54(a)1
      2 (1.99 cM)5
    2275261  NM_177647.41  NP_808315.11 
     35130305 
    lizard
    (Anolis carolinensis)
    Reptilia CDNF6
    cerebral dopamine neurotrophic factor
    58(a)
    1 ↔ 1
    GL343559.1(219974-231276)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia cdnf1 cerebral dopamine neurotrophic factor 67.13(n)
    66.67(a)
      100492278  XM_002935244.2  XP_002935290.1 
    zebrafish
    (Danio rerio)
    Actinopterygii cdnf1 cerebral dopamine neurotrophic factor 59.28(n)
    53.69(a)
      100037317  NM_001123281.1  NP_001116753.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Manf6
    Mesencephalic astrocyte-derived neurotrophic facto...
    46(a)
    1 → many
    3R(12175126-12176523)
    worm
    (Caenorhabditis elegans)
    Secernentea Y54G2A.236
    Protein Y54G2A.23 (Y54G2A.23) mRNA, complete cds
    44(a)
    1 → many
    IV(2927515-2928421) WBGene00021888


    ENSEMBL Gene Tree for CDNF (if available)
    TreeFam Gene Tree for CDNF (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CDNF gene
    MANF2  
    1 SIMAP similar gene for CDNF using alignment to 1 protein entry:     CDNF_HUMAN:
    MANF

    CDNF for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for CDNF (see all 418)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs750767401,2
    C,F--14860794(+) GGAGAC/TGGAAC 1 -- ds50012Minor allele frequency- T:0.23WA 120
    rs1913173651,2
    --14860797(+) GACGGA/TACCTC 1 -- ds50010--------
    rs561155301,2
    C,F--14860800(+) GGAACC/GTCACT 1 -- ds50012Minor allele frequency- G:0.07WA NA 238
    rs1399344031,2
    --14860850(+) ATCCTC/TCCGCC 1 -- ds50010--------
    rs118190611,2
    C,F,H--14860853(+) ctcccG/Acctca 1 -- ds50013Minor allele frequency- A:0.05NA CSA WA 121
    rs118177211,2
    C,F,H--14860865(+) cctctT/Cgaagt 1 -- ds50013Minor allele frequency- C:0.08NA CSA WA 121
    rs1116686481,2
    C,F--14860888(+) GGTGTG/AAGCCA 1 -- ds50011Minor allele frequency- A:0.50NA 2
    rs618430071,2
    C,F--14860952(+) ATAATG/TTTTCT 1 -- ds50011Minor allele frequency- T:0.00NA 2
    rs1869662841,2
    --14860983(+) TATGTA/TCATAC 1 -- ds50010--------
    rs118173271,2
    C,F,A,H--14861012(+) taattA/Ttccta 1 -- ds50017Minor allele frequency- T:0.03NS EA NA CSA WA 522

    HapMap Linkage Disequilibrium report for CDNF (14861249 - 14880574 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for CDNF:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv5899CNV Insertion18451855
    nsv471664CNV Gain+Loss15918152

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CDNF
    DNA2.0 Custom Variant and Variant Library Synthesis for CDNF

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 611233    OMIM disorders: --

    5 diseases for CDNF:    
    About MalaCards
    cocaine dependence    cerebritis    parkinson's disease    hepatocellular carcinoma
    neuronitis

    1 disease from the University of Copenhagen DISEASES database for CDNF:
    Parkinson's disease

    CDNF for disorders           About GeneDecksing

    Human Genome Epidemiology (HuGE) Navigator: CDNF (2 documents)

    Export disorders for CDNF gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for CDNF gene, integrated from 10 sources (see all 12):
    (articles sorted by number of sources associating them with CDNF)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Novel neurotrophic factor CDNF protects and rescues midbrain dopamine neurons in vivo. (PubMed id 17611540)1, 2, 3 Lindholm P.... Saarma M. (Nature 2007)
    2. The structure of the conserved neurotrophic factors MANF and CDNF explains why they are bifunctional. (PubMed id 19258449)1, 2 Parkash V.... Goldman A. (Protein Eng. Des. Sel. 2009)
    3. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)
    4. Analysis of mutations and the association between polymorphisms in the cerebral dopamine neurotrophic factor (CDNF) gene and Parkinson disease. (PubMed id 21320571)1 Choi J.M....Kim Y.J. (Neurosci. Lett. 2011)
    5. Association analysis between polymorphisms in the conserved dopamine neurotrophic factor (CDNF) gene and cocaine dependence. (PubMed id 19429035)1 Lohoff F.W....Oslin D.W. (Neurosci. Lett. 2009)
    6. Armet, a UPR-upregulated protein, inhibits cell proliferation and ER stress-induced cell death. (PubMed id 18561914)2 Apostolou A.... Fang S. (Exp. Cell Res. 2008)
    7. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    8. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (Nat. Genet. 2004)
    9. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (Nat. Biotechnol. 2004)
    10. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 441549 HGNC: 24913 AceView: LOC441549 Ensembl:ENSG00000185267 euGenes: HUgn441549
    ECgene: CDNF H-InvDB: CDNF

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for CDNF Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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