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CCDC61 Gene

protein-coding   GIFtS: 39
GCID: GC19P046498

Coiled-Coil Domain Containing 61

  Search for CCDC61
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 611 2
Coiled-Coil Domain-Containing Protein 612

External Ids:    HGNC: 336291   Entrez Gene: 7294402   Ensembl: ENSG000001049837   UniProtKB: Q9Y6R93   

Export aliases for CCDC61 gene to outside databases

Previous GC identifers: GC19P051191 GC19P042926


(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 CCDC61 Gene:
CCDC61 (coiled-coil domain containing 61) 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_000019.10  NT_011109.17  NC_018930.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the CCDC61 gene promoter:
         E2F-4   E2F-3a   STAT1   E2F-5   p53   E2F-2   STAT1alpha   GATA-2   E2F   E2F-1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CCDC61

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CCDC61


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

Entrez Gene cytogenetic band: 19q13.32   Ensembl cytogenetic band:  19q13.32   HGNC cytogenetic band: 19q13.32

CCDC61 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CCDC61 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P046498:  view genomic region     (about GC identifiers)

Start:
46,498,339 bp from pter      End:
46,524,576 bp from pter
Size:
26,238 bases      Orientation:
plus 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: CCD61_HUMAN, Q9Y6R9 (See protein sequence)
Recommended Name: Coiled-coil domain-containing protein 61  
Size: 512 amino acids; 57368 Da
Sequence caution: Sequence=AAD38244.1; Type=Erroneous gene model prediction; Sequence=AAD38244.1; Type=Erroneous
initiation; Note=Translation N-terminally shortened; Sequence=AAF98366.1; Type=Erroneous initiation;
Note=Translation N-terminally shortened;
Secondary accessions: C8CAP4 Q9HDB6
Alternative splicing: 2 isoforms:  Q9Y6R9-1   Q9Y6R9-2   

Explore the universe of human proteins at neXtProt for CCDC61: NX_Q9Y6R9

Explore proteomics data for CCDC61 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys326, Lys442
  • Modification sites at PhosphoSitePlus

  • See CCDC61 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001254652.1  
    ENSEMBL proteins: 
     ENSP00000471454   ENSP00000469909   ENSP00000469524   ENSP00000469466   ENSP00000263284  
     ENSP00000444279  

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    Cloud-Clone Corp. CLIAs for CCDC61


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    ProtoNet protein and cluster: Q9Y6R9


    (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 CCDC61
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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
    cytoskeleton5
    nucleus3
    cytosol2
    mitochondrion1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005813centrosome IDA--

    CCDC61 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 CCDC61
    Interactions:

        Search GeneGlobe Interaction Network for CCDC61

    (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 CCDC61 (CCD61)



    (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 CCDC61 gene (2 alternative transcripts): 
    NM_001080402.1  NM_001267723.1  

    Unigene Cluster for CCDC61:

    Coiled-coil domain containing 61
    Hs.515479  [show with all ESTs]
    Unigene Representative Sequence: NM_001267723
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000596161 ENST00000595358 ENST00000594672 ENST00000596687 ENST00000599044
    ENST00000594087 ENST00000601763 ENST00000263284(uc002pdw.3 uc021uwd.1)
    ENST00000536603
    miRNA
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    hsa-miR-520d-5p hsa-miR-524-5p hsa-miR-3918 hsa-miR-342-3p
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Additional mRNA sequence: GQ375050.1 

    6 DOTS entries:

    DT.307996  DT.434098  DT.95305974  DT.95354295  DT.100743969  DT.91715679 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for CCDC61    About this scheme

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


    ECgene alternative splicing isoforms for CCDC61

    (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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    CCDC61 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTGGGAGGGA
    CCDC61 Expression
    About this image

    CCDC61 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CCDC61 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.515479
        Custom PCR Arrays for CCDC61
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CCDC61

    (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 CCDC61 gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ccdc611 coiled-coil domain containing 61 84.38(n)
    86.02(a)
      232933  NM_001033314.3  NP_001028486.1 
    chicken
    (Gallus gallus)
    Aves CCDC616
    Gallus gallus coiled-coil domain containing 61 (CC...
    44(a)
    1 ↔ 1
    9(2941278-2944795)
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    Uncharacterized protein
    74(a)
    42(a)
    many → 1
    many → 1
    GL343860.1(139474-149279)
    GL344716.1(482-15194)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia LOC1004862611 coiled-coil domain-containing protein 61-like 51.69(n)
    48.94(a)
      100486261  XM_004916963.1  XP_004917020.1 
    zebrafish
    (Danio rerio)
    Actinopterygii ccdc611 coiled-coil domain containing 61 50.75(n)
    45.9(a)
      798766  NM_001077166.1  NP_001070634.1 


    ENSEMBL Gene Tree for CCDC61 (if available)
    TreeFam Gene Tree for CCDC61 (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 CCDC61 (see all 615)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1850303791,2
    --46496759(+) TAGATG/TGGGTT 1 -- us2k10--------
    rs7498181,2
    C,F,H--46496793(+) CATAGA/CTACTT 1 -- us2k132Minor allele frequency- N:0.00EA NA NS WA 3402
    rs1894146101,2
    C--46496851(+) TTCCCG/TGAATG 1 -- us2k10--------
    rs1126287371,2
    F--46496869(+) TGTGTA/TAGTTA 1 -- us2k13Minor allele frequency- T:0.04CSA WA 122
    rs1809384171,2
    --46496950(+) AGCATC/GTGTGT 1 -- us2k10--------
    rs1858435031,2
    --46496991(+) TGCGCA/GGTGGC 1 -- us2k10--------
    rs1139031081,2
    C--46497111(+) AAATT-/AAAAAA 1 -- us2k11Minor allele frequency- A:0.50CSA 2
    rs1898594071,2
    --46497112(+) AAATTA/TAAAAA 1 -- us2k10--------
    rs1440350381,2
    --46497236(+) CTGCAC/GTCCAG 1 -- us2k10--------
    rs730557741,2
    C,F--46497293(+) AAACAA/CAAAAT 1 -- us2k17Minor allele frequency- C:0.42NA WA CSA EA 366

    HapMap Linkage Disequilibrium report for CCDC61 (46498339 - 46524576 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for CCDC61:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv25420CNV Loss19812545
    nsv912175CNV Loss21882294
    nsv912176CNV Gain21882294

    Site Specific Mutation Identification with PCR Assays
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    (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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    CCDC61 for disorders           About GeneDecksing

    Genetic Association Database (GAD): CCDC61
    Human Genome Epidemiology (HuGE) Navigator: CCDC61 (3 documents)

    Export disorders for CCDC61 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 CCDC61 gene, integrated from 10 sources (see all 11):
    (articles sorted by number of sources associating them with CCDC61)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (Diabetes Care 2010)
    2. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (Cell 2006)
    3. The DNA sequence and biology of human chromosome 19. (PubMed id 15057824)1, 2 Grimwood J.... Lucas S.M. (Nature 2004)
    4. N-terminal acetylome analyses and functional insights of the N- terminal acetyltransferase NatB. (PubMed id 22814378)2 Van Damme P....Aldabe R. (Proc. Natl. Acad. Sci. U.S.A. 2012)
    5. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (Sci. Signal. 2011)
    6. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (Sci. Signal. 2010)
    7. Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip. (PubMed id 19913121)1 Talmud P.J.... . (Am. J. Hum. Genet. 2009)
    8. Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach. (PubMed id 19413330)2 Gauci S....Mohammed S. (Anal. Chem. 2009)
    9. Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (Sci. Signal. 2009)
    10. 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: 729440 HGNC: 33629 Ensembl:ENSG00000104983 euGenes: HUgn729440 ECgene: CCDC61
    H-InvDB: CCDC61

    (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 CCDC61 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 CCDC61 gene:
    Search GeneIP for patents involving CCDC61

    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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