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CCDC169 Gene

protein-coding   GIFtS: 32
GCID: GC13M036802

Coiled-Coil Domain Containing 169

(Previous name: chromosome 13 open reading frame 38)
(Previous symbol: C13orf38)
  Search for CCDC169
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
Coiled-Coil Domain Containing 1691 2
C13orf381 2 3
Chromosome 13 Open Reading Frame 381
RP11-251J8.12
Coiled-Coil Domain-Containing Protein 1692

External Ids:    HGNC: 343611   Entrez Gene: 7285912   Ensembl: ENSG000002427157   UniProtKB: A6NNP53   

Export aliases for CCDC169 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 CCDC169 Gene:
CCDC169 (coiled-coil domain containing 169) 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:
NC_000013.11  NC_018924.2  NT_024524.15  
Regulatory elements:
   Search for regulatory transcription factor binding sites for CCDC169
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CCDC169

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CCDC169


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

Entrez Gene cytogenetic band: 13q13.3   Ensembl cytogenetic band:  13q13.3   HGNC cytogenetic band: 13q13.3

CCDC169 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CCDC169 gene location

GeneLoc information about chromosome 13         GeneLoc Exon Structure

GeneLoc location for GC13M036802:  view genomic region     (about GC identifiers)

Start:
36,801,179 bp from pter      End:
36,871,992 bp from pter
Size:
70,814 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: CC169_HUMAN, A6NNP5 (See protein sequence)
Recommended Name: Coiled-coil domain-containing protein 169  
Size: 214 amino acids; 25253 Da
Secondary accessions: A6NC13 A6NCT2 B7ZW45 B7ZW49 B9EJF2 Q9H1T4 Q9H1T5
Alternative splicing: 6 isoforms:  A6NNP5-1   A6NNP5-2   A6NNP5-3   A6NNP5-4   A6NNP5-5   A6NNP5-6   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for CCDC169: NX_A6NNP5

Explore proteomics data for CCDC169 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See CCDC169 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (7 alternative transcripts): 
    NP_001138453.1  NP_001138454.1  NP_001138455.1  NP_001138456.1  NP_001138457.1  NP_001138458.1  NP_001185837.1  

    ENSEMBL proteins: 
     ENSP00000420862   ENSP00000425252   ENSP00000426174   ENSP00000239860   ENSP00000369193  
     ENSP00000427495   ENSP00000369191   ENSP00000239859  

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    Cloud-Clone Corp. CLIAs for CCDC169


    (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:
     IPR028022 DUF4600

    Graphical View of Domain Structure for InterPro Entry A6NNP5

    ProtoNet protein and cluster: A6NNP5

    UniProtKB/Swiss-Prot: CC169_HUMAN, A6NNP5
    Similarity: Belongs to the CCDC169 family


    CCDC169 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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    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CCDC169
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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 CCDC169
    Interactions:

        Search GeneGlobe Interaction Network for CCDC169

    (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 CCDC169 (CC169)



    (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 CCDC169 gene (7 alternative transcripts): 
    NM_001144981.2  NM_001144982.2  NM_001144983.2  NM_001144984.2  NM_001144985.2  NM_001144986.2  NM_001198908.1  

    Unigene Cluster for CCDC169:

    Coiled-coil domain containing 169
    Hs.656745  [show with all ESTs]
    Unigene Representative Sequence: AK023568
    13 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000479850(uc010tem.2 uc010tek.2 uc010tej.2 uc010tel.2)
    ENST00000506800 ENST00000491049 ENST00000503173 ENST00000239860 ENST00000379864
    ENST00000510088(uc010abm.3 uc010abo.3 uc010abn.3) ENST00000379862
    ENST00000239859 ENST00000471781 ENST00000486683 ENST00000477250(uc001uvl.4)
    ENST00000485600
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    Additional mRNA sequence: AK023568.1 

    1 DOTS entry:

    DT.40196831 

    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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    CCDC169 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TATTTCTTTA
    CCDC169 Expression
    About this image


    CCDC169 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 3) fully expand
     
     Adipose (Muscoskeletal System)
             Mesenchymal Stem Cells Subcutaneous White Adipose
     
     Mesenchymal Stem Cells
             Mesenchymal Stem Cells Subcutaneous White Adipose
     
     Testis (Reproductive System)
    CCDC169 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CCDC169 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.656745
        Custom PCR Arrays for CCDC169
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CCDC169

    (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 CCDC169 gene from Selected species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ccdc1691 , 5 RIKEN cDNA A730037C10 gene5
    coiled-coil domain containing 1691
    77.26(n)1
    71.03(a)1
      3 (26.53 cM)5
    3206041  NM_177203.21  NP_796177.21 
     551373395 
    chicken
    (Gallus gallus)
    Aves CCDC1691 coiled-coil domain containing 169 62.12(n)
    47.98(a)
      101751930  XM_004938754.1  XP_004938811.1 
    lizard
    (Anolis carolinensis)
    Reptilia CCDC1696
    coiled-coil domain containing 169
    50(a)
    1 ↔ 1
    3(181763242-181778194)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia ccdc1691 coiled-coil domain containing 169 61.58(n)
    49.47(a)
      100497065  XM_002937881.2  XP_002937927.2 
    zebrafish
    (Danio rerio)
    Actinopterygii ccdc1691 coiled-coil domain containing 169 52.02(n)
    39.39(a)
      559748  XM_683115.5  XP_688207.4 


    ENSEMBL Gene Tree for CCDC169 (if available)
    TreeFam Gene Tree for CCDC169 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CCDC169 gene
    1 SIMAP similar gene for CCDC169 using alignment to 2 protein entries:     CC169_HUMAN (see all proteins):
    C13orf38

    CCDC169 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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    1 SNPs for CCDC169    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 13 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs95468971,2,4
    ----see VAR_0578112 mis40--------

    HapMap Linkage Disequilibrium report for CCDC169 (36801179 - 36871992 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for CCDC169 (see all 11):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv1749604CNV Deletion17803354
    esv2666917CNV Deletion23128226
    esv2747267CNV Deletion23290073
    esv2747266CNV Deletion23290073
    esv2747265CNV Deletion23290073
    esv2095309CNV Deletion18987734
    esv2747263CNV Deletion23290073
    esv2671981CNV Deletion23128226
    nsv525432CNV Loss19592680
    nsv899993CNV Gain21882294

    Site Specific Mutation Identification with PCR Assays
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    DNA2.0 Custom Variant and Variant Library Synthesis for CCDC169

    (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 CCDC169 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with CCDC169)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    2. The DNA sequence and analysis of human chromosome 13. (PubMed id 15057823)2 Dunham A.... Ross M.T. (Nature 2004)
    3. 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)
    4. 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)
    5. The sequence of the human genome. (PubMed id 11181995)1 Venter J.C.... Zhu X. (Science 2001)

    (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: 728591 HGNC: 34361 Ensembl:ENSG00000242715 euGenes: HUgn728591 ECgene: CCDC169
    H-InvDB: CCDC169

    (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 CCDC169 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 CCDC169 gene:
    Search GeneIP for patents involving CCDC169

    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, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, 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 inGenious Targeting Laboratory, genOway)
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     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CCDC169
     inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CCDC169
     inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for CCDC169
     Search LSBio for Antibodies for CCDC169
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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

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