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CCDC142 Gene

protein-coding   GIFtS: 39
GCID: GC02M074703

Coiled-Coil Domain Containing 142

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disease database 

(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
Coiled-Coil Domain Containing 1421 2
Coiled-Coil Domain-Containing Protein 1422

External Ids:    HGNC: 258891   Entrez Gene: 848652   Ensembl: ENSG000001356377   UniProtKB: Q17RM43   

Export aliases for CCDC142 gene to outside databases

Previous GC identifers: GC02M074555 GC02M074436


(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 CCDC142 Gene:
CCDC142 (coiled-coil domain containing 142) 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_000002.11  NC_018913.2  NT_022184.16  
Regulatory elements:
   Regulatory transcription factor binding sites in the CCDC142 gene promoter:
         E2F-4   E2F-3a   NF-1/L   NF-1   E2F-5   STAT1   E2F-2   E2F-1   E2F   Pax-4a   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCCDC142 promoter sequence
   Search Chromatin IP Primers for CCDC142

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CCDC142


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

Entrez Gene cytogenetic band: 2p13.1   Ensembl cytogenetic band:  2p13.1   HGNC cytogenetic band: 2p13.1

CCDC142 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CCDC142 gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02M074703:  view genomic region     (about GC identifiers)

Start:
74,699,113 bp from pter      End:
74,710,535 bp from pter
Size:
11,423 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: CC142_HUMAN, Q17RM4 (See protein sequence)
Recommended Name: Coiled-coil domain-containing protein 142  
Size: 750 amino acids; 81643 Da
Sequence caution: Sequence=BAC11474.1; Type=Erroneous initiation;
Secondary accessions: B7ZKV5 Q8NBJ3 Q8NBV2 Q96KA7
Alternative splicing: 3 isoforms:  Q17RM4-1   Q17RM4-2   Q17RM4-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for CCDC142: NX_Q17RM4

Explore proteomics data for CCDC142 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See CCDC142 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_116168.3  
    ENSEMBL proteins: 
     ENSP00000415532   ENSP00000377537   ENSP00000290418  

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    antibodies-online peptides for CCDC142

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    antibodies-online kits for CCDC142 (16 products) 


    (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:
     IPR026700 CCDC142

    Graphical View of Domain Structure for InterPro Entry Q17RM4

    ProtoNet protein and cluster: Q17RM4


    Find genes that share domains with CCDC142           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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    Phenotypes:
         2 GenomeRNAi human phenotypes for CCDC142:
     Increased G2M DNA content  Increased number of mitotic ce 

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for CCDC142

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    miRTarBase miRNAs that target CCDC142:
    hsa-mir-124-3p (MIRT022667), hsa-mir-221-3p (MIRT046889), hsa-mir-615-3p (MIRT040060)

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    Selected qRT-PCR Assays for microRNAs that regulate CCDC142 (see all 15):
    hsa-miR-4324 hsa-miR-640 hsa-miR-125a-5p hsa-miR-3136-5p hsa-miR-3664-5p hsa-miR-186* hsa-miR-1245 hsa-miR-3155
    SwitchGear 3'UTR luciferase reporter plasmidCCDC142 3' UTR sequence
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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 COMPARTMENTS: 

    CompartmentConfidence
    extracellular2
    cytosol1
    endoplasmic reticulum1
    mitochondrion1
    nucleus1
    peroxisome1

    (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 CCDC142
    Interactions:

        Search GeneGlobe Interaction Network for CCDC142

    (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 CCDC142 (CC142)



    (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 CCDC142 gene: 
    NM_032779.3  

    Unigene Cluster for CCDC142:

    Coiled-coil domain containing 142
    Hs.430199  [show with all ESTs]
    Unigene Representative Sequence: NM_032779
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000454193 ENST00000393965(uc002slo.3 uc002slq.3 uc002slr.3 uc002slp.2)
    ENST00000290418 ENST00000473278 ENST00000486335 ENST00000497232 ENST00000471713
    ENST00000474681 ENST00000472962
    miRNA
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    hsa-miR-4324 hsa-miR-640 hsa-miR-125a-5p hsa-miR-3136-5p hsa-miR-3664-5p hsa-miR-186* hsa-miR-1245 hsa-miR-3155
    SwitchGear 3'UTR luciferase reporter plasmidCCDC142 3' UTR sequence
    Inhib. RNA
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      QuantiFast Probe-based Assays in human, mouse, rat CCDC142

    Additional mRNA sequence: 

    AK027303.1 AK075543.1 BC117269.1 BC143398.1 BC143399.1 

    8 DOTS entries:

    DT.70100578  DT.120931224  DT.120931180  DT.100748112  DT.100741615  DT.91845890  DT.95199100  DT.97842869 

    Selected AceView cDNA sequences (see all 153):

    AW163645 AI149851 CB216111 BC012163 BM695872 BF941879 AA424037 NM_053050 
    AI493696 AK075209 AI268599 AI420098 AW166509 BQ014848 AW081076 BI858166 
    BQ016433 AW004617 AW157651 AI564950 BG482977 BM054850 CK904548 BM666951 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for CCDC142 (see all 9)    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b · 8c ^ 9 ^ 10a · 10b ^ 11a · 11b · 11c ^ 12a · 12b ^ 13a · 13b
    SP1:                                                                                -     -     -                 -                     
    SP2:                                                                                                                                    
    SP3:                                                                                                                                    
    SP4:                                                                                                                                    
    SP5:                                                                                                              -                     


    ECgene alternative splicing isoforms for CCDC142

    (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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    CCDC142 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CGTTGTGCCG
    CCDC142 Expression
    About this image

    CCDC142 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CCDC142 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.430199
        Custom PCR Arrays for CCDC142
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CCDC142

    (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 chordates.

    Orthologs for CCDC142 gene from Selected species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ccdc1421 , 5 coiled-coil domain containing 1421, 5 76.14(n)1
    73.26(a)1
      6 (35.94 cM)5
    2435101  NM_001081266.11  NP_001074735.11 
     831016175 
    lizard
    (Anolis carolinensis)
    Reptilia CCDC1426
    coiled-coil domain containing 142
    35(a)
    1 ↔ 1
    GL344284.1(32505-41483)
    zebrafish
    (Danio rerio)
    Actinopterygii CCDC1426
    coiled-coil domain containing 142
    21(a)
    1 ↔ 1
    14(18747288-18765032) ENSDARG00000004780


    ENSEMBL Gene Tree for CCDC142 (if available)
    TreeFam Gene Tree for CCDC142 (if available)

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

    (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 CCDC142 (see all 142)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 2 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1867702431,2
    C--74702019(+) AAAGCA/GGTGAG 1 -- int10--------
    rs1995106501,2
    C--74702025(+) GTGAGC/TGAAGG 1 -- int10--------
    rs2017789711,2
    C--74702085(+) CAGGGG/TCTGCT 2 T P mis10--------
    rs1450347431,2
    C--74702153(+) TCTGGC/G/TGGAGA 3 H P R mis10--------
    rs796842461,2
    C--74702216(+) AGTCTT/GGTTTG 2 /Q /P mis11Minor allele frequency- G:0.01NA 120
    rs1918299351,2
    C--74702287(+) CCTCTC/TCCACT 1 -- int10--------
    rs2008183731,2
    --74702369(+) CCATGG/TGTAAG 2 T syn10--------
    rs1997984011,2
    --74702398(+) ACCCAC/TGATGG 2 M V mis10--------
    rs1485313781,2
    C,F--74702410(+) CGTCAG/AAGCCT 2 /L syn11Minor allele frequency- A:0.00NA 4552
    rs1424627361,2
    F--74702471(+) AACACA/TGGCTC 2 P syn11Minor allele frequency- T:0.00NA 4546

    HapMap Linkage Disequilibrium report for CCDC142 (74699113 - 74710535 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for CCDC142:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv458185CNV Loss19166990
    nsv515851CNV Loss19592680
    dgv4166n71CNV Loss21882294
    dgv1199e1CNV Complex17122850

    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing CCDC142
    DNA2.0 Custom Variant and Variant Library Synthesis for CCDC142

    (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 CCDC142 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with CCDC142)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Signal sequence and keyword trap in silico for selection of full- length human cDNAs encoding secretion or membrane proteins from oligo- capped cDNA libraries. (PubMed id 16303743)1, 2 Otsuki T....Isogai T. (DNA Res. 2005)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. [Novel bidirectional promoter from human genome]. (PubMed id 21790010)1 Orekhova A.S....Rubtsov P.M. (Mol. Biol. (Mosk.) 2011)
    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. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (Genome Res. 1996)

    (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: 84865 HGNC: 25889 AceView: FLJ14397andMRPL53 Ensembl:ENSG00000135637 euGenes: HUgn84865
    ECgene: CCDC142 H-InvDB: CCDC142

    (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 CCDC142 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 CCDC142 gene:
    Search GeneIP for patents involving CCDC142

    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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     Block miRNA regulation of human, mouse, rat CCDC142 using miScript Target Protectors SeqTarget long-range PCR primers for resequencing CCDC142
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