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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

CCDC96 Gene

protein-coding   GIFtS: 39
GCID: GC04M007042

coiled-coil domain containing 96
  Search for CCDC96
in
MalaCards
our new
 Human Malady Compendium 
Biological research products
for CCDC96    

Aliases
for CCDC96 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Coiled-Coil Domain Containing 961 2
FLJ905751
Coiled-Coil Domain-Containing Protein 962

External Ids:    HGNC: 269001   Entrez Gene: 2572362   Ensembl: ENSG000001730137   UniProtKB: Q2M3293   

Export aliases for CCDC96 gene to outside databases

Previous GC identifer: GC04M007093


Summaries
for CCDC96 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
  --

Genomic Views
for CCDC96 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000004.11  NC_018915.1  NT_006051.18  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CCDC96 gene promoter:
         Evi-1   GATA-1   CREB   Ik-2   FOXO4   deltaCREB   FOXO1a   SEF-1 (1)   TGIF   FOXO1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: CCDC96 promoter sequence
   Search SABiosciences Chromatin IP Primers for CCDC96

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CCDC96


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

Entrez Gene cytogenetic band: 4p16.1   Ensembl cytogenetic band:  4p16.1   HGNC cytogenetic band: 4p16.1

CCDC96 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CCDC96 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04M007042:  view genomic region     (about GC identifiers)

Start:
 7,042,576 bp from pter      End:
 7,044,728 bp from pter
Size:
 2,153 bases      Orientation:
 minus strand

Proteins
for CCDC96 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: CCD96_HUMAN, Q2M329 (See protein sequence)
Recommended Name: Coiled-coil domain-containing protein 96  
Size: 555 amino acids; 62711 Da
Secondary accessions: Q8N2I7

Explore the universe of human proteins at neXtProt for CCDC96: NX_Q2M329

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q2M329

    • CCDC96 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_699207.1  
    ENSEMBL proteins: 
     ENSP00000309285  

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    Protein Domains /
    Families
    for CCDC96 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    CCDC96 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR025254 DUF4201

    Graphical View of Domain Structure for InterPro Entry Q2M329

    ProtoNet protein and cluster: Q2M329


    Function
    for CCDC96 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    miRNA
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    Inhib. RNA
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    Pathways & Interactions
    for CCDC96 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CCDC96

    Drugs & Compounds
    for CCDC96 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for CCDC96
    Search CenterWatch for drugs/clinical trials and news about CCDC96 / CCD96 

    Transcripts
    for CCDC96 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for CCDC96 gene: 
    NM_153376.2  

    Unigene Cluster for CCDC96:

    Coiled-coil domain containing 96
    Hs.656757  [show with all ESTs]
    Unigene Representative Sequence: NM_153376
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000310085(uc003gjv.2)

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    Inhib. RNA
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    Additional cDNA sequence: 

    AK075056.1 BC105055.1 BC112274.1 

    2 DOTS entries:

    DT.40199523  DT.95301489 

    17 AceView cDNA sequences:

    BE550360 AK075056 BU101619 BQ015371 BQ009685 CK300202 AI453089 AI352352 
    NM_153376 BX091584 AI609755 BQ188733 AI862332 BE504875 R27422 AI828177 
    AW449605 

    GeneLoc Exon Structure


    Expression
    for CCDC96 gene

    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    CCDC96 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GAGAACGCGT

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    CCDC96 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Posterior foregut-like cells (A scalable, suspensi...)
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See CCDC96 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CCDC96

    SOURCE GeneReport for Unigene cluster: Hs.656757
        SABiosciences Custom PCR Arrays for CCDC96
    Primer
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    In Situ
    Assay Products:     
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    Orthologs
    for CCDC96 gene

    (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)
    About This Section
    This gene was present in the common ancestor of chordates.

    Orthologs for CCDC96 gene from 5/16 species (see all 16)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    mouse
    (Mus musculus)    		 Mammalia Ccdc961 , 5 coiled-coil domain containing 961, 5 72.98(n)1
    64.34(a)1    		   5 (19.14 cM)5
    667171  NM_025725.21  NP_080001.11 
     364845885 
    chicken
    (Gallus gallus)    		 Aves LOC1008596471 coiled-coil domain-containing protein 96-like 54.17(n)
    38.33(a)    		   100859647  XM_003641227.1  XP_003641275.1 
    lizard
    (Anolis carolinensis)    		 Reptilia CCDC966
    		 --
    		 53(a)
    		 1 ↔ 1
    		 4(79463369-79466408)
    African clawed frog
    (Xenopus laevis)    		 Amphibia Xl.114742 Xenopus laevis transcribed sequence with weak similarity more 71.01(n)    48057799 
    zebrafish
    (Danio rerio)    		 Actinopterygii zgc:1948511 zgc:194851 50.39(n)
    38.32(a)    		   559167  NM_001128698.1  NP_001122170.1 


    ENSEMBL Gene Tree for CCDC96 (if available)
    TreeFam Gene Tree for CCDC96 (if available) 

    Paralogs
    for CCDC96 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CCDC96 gene
    CCDC1132  

    CCDC96 for paralogs           About GeneDecksing



    Genomic Variants
    for CCDC96 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 3 variations for CCDC96
         3 CNVs: 68648 3478 47919
    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing CCDC96
    DNA2.0 Custom Variant and Variant Library Synthesis for CCDC96

    Disorders / Diseases
    for CCDC96 gene

    (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.)
    About This Section
    		   --

    Publications
    for CCDC96 gene

    (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)
    About This Section

    PubMed articles for CCDC96 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with CCDC96)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    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. (2002)

    External Searches for CCDC96 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing CCDC96 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 257236 HGNC: 26900 AceView: FLJ90575 Ensembl:ENSG00000173013 euGenes: HUgn257236
    ECgene: CCDC96 H-InvDB: CCDC96

    Other Databases showing CCDC96 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing CCDC96 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for CCDC96 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for CCDC96 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for CCDC96 gene:
    Search GeneIP for patents involving CCDC96

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



    Products
    for CCDC96 gene

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    About This Section

     
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