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CDPF1 Gene

protein-coding   GIFtS: 30
GCID: GC22M046641

Cysteine-Rich, DPF Motif Domain Containing 1

(Previous name: chromosome 22 open reading frame 40)
(Previous symbol: C22orf40)
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(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
Cysteine-Rich, DPF Motif Domain Containing 11 2
C22orf401 2 3
Chromosome 22 Open Reading Frame 401
Cysteine-Rich DPF Motif Domain-Containing Protein 12
UPF0595 Protein C22orf402

External Ids:    HGNC: 337101   Entrez Gene: 1503832   Ensembl: ENSG000002056437   UniProtKB: Q6NVV73   

Export aliases for CDPF1 gene to outside databases


(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 CDPF1 Gene:
CDPF1 (cysteine-rich, DPF motif domain containing 1) is a protein-coding gene.


(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 at NCBI GenBank:
NC_000022.10  NC_018933.2  NT_011520.13  
Regulatory elements:
   Search for regulatory transcription factor binding sites for CDPF1
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CDPF1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CDPF1


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

Entrez Gene cytogenetic band: 22q13.31   Ensembl cytogenetic band:  22q13.31   HGNC cytogenetic band: 22q13.31

CDPF1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CDPF1 gene location

GeneLoc information about chromosome 22         GeneLoc Exon Structure

GeneLoc location for GC22M046641:  view genomic region     (about GC identifiers)

Start:
46,639,908 bp from pter      End:
46,646,576 bp from pter
Size:
6,669 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: CDPF1_HUMAN, Q6NVV7 (See protein sequence)
Recommended Name: Cysteine-rich DPF motif domain-containing protein 1  
Size: 123 amino acids; 13877 Da
Secondary accessions: A6NCA1 A9IU12 A9IU16 Q3ZCR8

Explore the universe of human proteins at neXtProt for CDPF1: NX_Q6NVV7

Explore proteomics data for CDPF1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See CDPF1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_997210.3  
    ENSEMBL proteins: 
     ENSP00000384451   ENSP00000325301   ENSP00000370425   ENSP00000385460  

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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:
     IPR018785 Cys-rich_DPF

    Graphical View of Domain Structure for InterPro Entry Q6NVV7

    ProtoNet protein and cluster: Q6NVV7

    UniProtKB/Swiss-Prot: CDPF1_HUMAN, Q6NVV7
    Similarity: Belongs to the CDPF1 family


    Find genes that share domains with CDPF1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for CDPF1

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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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    (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 CDPF1
    Interactions:

        Search GeneGlobe Interaction Network for CDPF1

    (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 CDPF1



    (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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for CDPF1 gene (2 alternative transcripts): 
    NM_001008917.1  NM_207327.4  

    Unigene Cluster for CDPF1:

    Cysteine-rich, DPF motif domain containing 1
    Hs.592209  [show with all ESTs]
    Unigene Representative Sequence: BC036462
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000404583 ENST00000314567(uc003bhe.3) ENST00000381037(uc003bhf.3)
    ENST00000404744 ENST00000475605 ENST00000474256
    miRNA
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    Additional mRNA sequence: 

    BC036462.1 BC045796.2 BC067871.1 BX648331.1 CR456415.1 

    10 DOTS entries:

    DT.95174986  DT.407609  DT.101983439  DT.95266789  DT.95266790  DT.100779758  DT.100777940  DT.441884 
    DT.86855091  DT.95223788 

    Selected AceView cDNA sequences (see all 131):

    AI141192 BU932056 CR600118 BU848762 CR617709 BU859117 CR613320 BU845440 
    BU556536 CR456415 BU733382 N66686 BX394144 BU849557 BM709351 H55183 
    BE550218 AI805804 BC067871 NM_207327 BX093711 CR621136 BE501980 BU553442 

    GeneLoc Exon Structure


    (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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    CDPF1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    CDPF1 Expression
    About this image

    CDPF1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CDPF1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.592209
        Custom PCR Arrays for CDPF1
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    In Situ
    Assay Products:
     

     
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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 CDPF1 gene from Selected species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cdpf11 , 5 RIKEN cDNA 2210021J22 gene5
    cysteine rich, DPF motif domain containing 11
    78.15(n)1
    75.63(a)1
      15 (40.42 cM)5
    723551  NM_001164626.11  NP_001158098.11 
     858069725 
    chicken
    (Gallus gallus)
    Aves C1H22ORF401 chromosome 1 open reading frame, human C22orf40 66.94(n)
    66.67(a)
      418246  NM_001030772.1  NP_001025943.1 
    lizard
    (Anolis carolinensis)
    Reptilia CDPF16
    cysteine-rich, DPF motif domain containing 1
    45(a)
    1 ↔ 1
    5(83430753-83469666)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.15822 Xenopus laevis transcribed sequence with weak similarity more 71.69(n)    AW641442.1 
    zebrafish
    (Danio rerio)
    Actinopterygii BM026756.12   -- 73.65(n)    BM026756.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG117556
    --
    24(a)
    1 ↔ 1
    3R(4503865-4504677)


    ENSEMBL Gene Tree for CDPF1 (if available)
    TreeFam Gene Tree for CDPF1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CDPF1 gene

    Find genes that share paralogs with CDPF1           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for CDPF1
    PGOHUM00000259779


    (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 CDPF1 (see all 166)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 22 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1427915281,2
    --46640162(+) GATGGC/TAGGGG 1 -- ut310--------
    rs10533321,2
    C,F,A,H--46640179(-) ACTGCT/CTGCCT 1 -- ut3110Minor allele frequency- C:0.39MN NA WA CSA 613
    rs1474127371,2
    --46640368(+) GAGAAC/TGTCGG 1 -- ut310--------
    rs1920114211,2
    --46640588(+) GCAGCC/TACCTA 1 -- ut310--------
    rs1395432111,2
    --46640631(+) CTCCCA/CCCACA 1 -- ut310--------
    rs72927711,2
    C,F,A--46640638(+) CACACG/ACACCT 1 -- ut31 ese32Minor allele frequency- A:0.21CSA WA 120
    rs57678421,2
    C,H--46640827(+) TGTGGC/TTGCTC 1 -- ut31 ese34Minor allele frequency- T:0.00NS EA 420
    rs738867721,2
    C,F--46640967(+) CGCCCG/AATGAC 1 -- ut314Minor allele frequency- A:0.01WA CSA EU 1445
    rs2022059301,2
    --46640992(+) ACTCAC/TGTCCG 2 T syn10--------
    rs1512509541,2
    C--46640993(+) CTCACG/ATCCGA 2 /T /M mis11Minor allele frequency- A:0.00NA 4552

    HapMap Linkage Disequilibrium report for CDPF1 (46639908 - 46646576 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for CDPF1: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CDPF1
    DNA2.0 Custom Variant and Variant Library Synthesis for CDPF1

    (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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      --

    (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 CDPF1 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with CDPF1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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)
    2. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (J. Biol. Chem. 2011)
    3. A genome annotation-driven approach to cloning the human ORFeome. (PubMed id 15461802)1 Collins J.E.... Dunham I. (Genome Biol. 2004)
    4. 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)
    5. 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)
    6. The DNA sequence of human chromosome 22. (PubMed id 10591208)2 Dunham I.... Wright H. (Nature 1999)

    (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: 150383 HGNC: 33710 AceView: LOC150383 Ensembl:ENSG00000205643 euGenes: HUgn150383
    ECgene: CDPF1 H-InvDB: CDPF1

    (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 CDPF1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for CDPF1 gene:
    Search GeneIP for patents involving CDPF1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from genOway)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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