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Aliases for CCDC9 Gene

Aliases for CCDC9 Gene

  • Coiled-Coil Domain Containing 9 2 3 5
  • Coiled-Coil Domain-Containing Protein 9 3 4

External Ids for CCDC9 Gene

Previous GeneCards Identifiers for CCDC9 Gene

  • GC00U914334
  • GC19P052452
  • GC19P052453
  • GC19P047759
  • GC19P044183

Summaries for CCDC9 Gene

GeneCards Summary for CCDC9 Gene

CCDC9 (Coiled-Coil Domain Containing 9) is a Protein Coding gene. An important paralog of this gene is CCDC9B.

Additional gene information for CCDC9 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CCDC9 Gene

Genomics for CCDC9 Gene

GeneHancer (GH) Regulatory Elements for CCDC9 Gene

Promoters and enhancers for CCDC9 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19J047255 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 654.2 +1.9 1876 4.5 MTA3 ZNF652 SP1 CC2D1A ZFX ELF3 MNT CBFA2T2 ZNF148 NKRF CCDC9 PIR47035 ZC3H4 NOP53-AS1 BICRA NOP53 SNORD23 ENSG00000268810 SLC1A5 EHD2
GH19J047225 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 94.7 -26.6 -26632 8.3 HDGF SP1 ZNF652 ZFX CC2D1A ELF3 ZKSCAN8 MNT CBFA2T2 ZNF148 BBC3 BICRA ENSG00000268810 NOP53-AS1 CCDC9 NOP53 PPP5D1 INAFM1 LIG1 SNORD23
GH19J047242 Promoter/Enhancer 2.2 EPDnew FANTOM5 ENCODE dbSUPER 77.8 -12.2 -12189 2.5 ZNF652 SP1 CTCF ZFX CC2D1A ELF3 MNT CBFA2T2 ZNF148 NKRF BBC3 ZC3H4 BICRA ENSG00000268810 NOP53-AS1 CCDC9 NOP53 SLC1A5 SNORD23 ENSG00000268746
GH19J046600 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 30.2 -653.7 -653727 4.9 ZFX SP1 CC2D1A ELF3 MNT ZKSCAN8 SIX5 ZNF148 NKRF POLR2A PPP5D1 CALM3 ENSG00000268423 GC19M046598 ZC3H4 CCDC61 ENSG00000268810 ENSG00000269148 FBXO46 CCDC9
GH19J047712 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 31.1 +458.2 458213 2.8 CTCF CC2D1A NCOA6 ZNF404 ZNF680 EGR1 ZNF560 GMEB1 POLR2A ARID2 EHD2 ZC3H4 BICRA NOP53-AS1 GRWD1 CYTH2 CCDC9 KDELR1 NOP53 ENSG00000268093
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CCDC9 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CCDC9 gene promoter:
  • PPAR-gamma1
  • PPAR-gamma2
  • Sp1
  • STAT5A

Genomic Locations for CCDC9 Gene

Genomic Locations for CCDC9 Gene
17,722 bases
Plus strand
15,974 bases
Plus strand

Genomic View for CCDC9 Gene

Genes around CCDC9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CCDC9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CCDC9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CCDC9 Gene

Proteins for CCDC9 Gene

  • Protein details for CCDC9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Coiled-coil domain-containing protein 9
    Protein Accession:

    Protein attributes for CCDC9 Gene

    531 amino acids
    Molecular mass:
    59703 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CCDC9 Gene

Post-translational modifications for CCDC9 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CCDC9 Gene

No data available for DME Specific Peptides for CCDC9 Gene

Domains & Families for CCDC9 Gene

Gene Families for CCDC9 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for CCDC9 Gene


Suggested Antigen Peptide Sequences for CCDC9 Gene

GenScript: Design optimal peptide antigens:
  • Coiled-coil domain-containing protein 9 (CCDC9_HUMAN)

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CCDC9: view

No data available for UniProtKB/Swiss-Prot for CCDC9 Gene

Function for CCDC9 Gene

Phenotypes From GWAS Catalog for CCDC9 Gene

Gene Ontology (GO) - Molecular Function for CCDC9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22658674
GO:0005515 protein binding IPI 21044950
genes like me logo Genes that share ontologies with CCDC9: view
genes like me logo Genes that share phenotypes with CCDC9: view

Animal Model Products

CRISPR Products

miRNA for CCDC9 Gene

Clone Products

  • Applied Biological Materials (abm): Clones for CCDC9 - Now 50% OFF >
  • * CCDC9 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * CCDC9 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CCDC9 Gene

Localization for CCDC9 Gene

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CCDC9 gene
Compartment Confidence
nucleus 3
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for CCDC9 Gene

Pathways & Interactions for CCDC9 Gene

PathCards logo

SuperPathways for CCDC9 Gene

No Data Available

Gene Ontology (GO) - Biological Process for CCDC9 Gene


No data available for Pathways by source and SIGNOR curated interactions for CCDC9 Gene

Drugs & Compounds for CCDC9 Gene

No Compound Related Data Available

Transcripts for CCDC9 Gene

mRNA/cDNA for CCDC9 Gene

Unigene Clusters for CCDC9 Gene

Coiled-coil domain containing 9:
Representative Sequences:

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for CCDC9 - Now 50% OFF >
  • * CCDC9 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * CCDC9 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

Alternative Splicing Database (ASD) splice patterns (SP) for CCDC9 Gene

No ASD Table

Relevant External Links for CCDC9 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CCDC9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CCDC9 Gene

Protein differential expression in normal tissues from HIPED for CCDC9 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (14.6) and Pancreas (11.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CCDC9 Gene

Protein tissue co-expression partners for CCDC9 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CCDC9 Gene:


SOURCE GeneReport for Unigene cluster for CCDC9 Gene:


Evidence on tissue expression from TISSUES for CCDC9 Gene

  • Liver(4.2)
  • Skin(4.2)
genes like me logo Genes that share expression patterns with CCDC9: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CCDC9 Gene

Orthologs for CCDC9 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CCDC9 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CCDC9 35 34
  • 99.18 (n)
(Canis familiaris)
Mammalia CCDC9 34
  • 83.66 (n)
-- 35
  • 81 (a)
-- 35
  • 65 (a)
(Bos Taurus)
Mammalia CCDC9 35 34
  • 83.4 (n)
(Mus musculus)
Mammalia Ccdc9 17 35 34
  • 80.23 (n)
(Monodelphis domestica)
Mammalia CCDC9 35
  • 62 (a)
(Anolis carolinensis)
Reptilia CCDC9 35
  • 46 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.18808 34
(Danio rerio)
Actinopterygii ccdc9 35 34
  • 59.23 (n)
Species where no ortholog for CCDC9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CCDC9 Gene

Gene Tree for CCDC9 (if available)
Gene Tree for CCDC9 (if available)
Evolutionary constrained regions (ECRs) for CCDC9: view image

Paralogs for CCDC9 Gene

Paralogs for CCDC9 Gene

genes like me logo Genes that share paralogs with CCDC9: view

Variants for CCDC9 Gene

Sequence variations from dbSNP and Humsavar for CCDC9 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000027685 -- 47,264,077(+) CCCC/CCC intron_variant
rs1000051605 -- 47,266,490(+) T/C intron_variant
rs1000114306 -- 47,254,771(+) C/A upstream_transcript_variant
rs1000171253 -- 47,261,936(+) G/C intron_variant
rs1000181939 -- 47,255,361(+) C/G/T upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for CCDC9 Gene

Variant ID Type Subtype PubMed ID
esv3893225 CNV loss 25118596
nsv1059583 CNV loss 25217958
nsv1067417 CNV gain 25217958
nsv833852 CNV loss 17160897

Variation tolerance for CCDC9 Gene

Residual Variation Intolerance Score: 90.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.27; 81.27% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CCDC9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CCDC9 Gene

Disorders for CCDC9 Gene

Additional Disease Information for CCDC9

No disorders were found for CCDC9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CCDC9 Gene

Publications for CCDC9 Gene

  1. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S … Poustka A (Genome research 2001) 2 3 4 58
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  3. Loss of ER retention motif of AGR2 can impact mTORC signaling and promote cancer metastasis. (PMID: 30575818) Tiemann K … Kani K (Oncogene 2019) 3 58
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  5. Dynamic Protein Interactions of the Polycomb Repressive Complex 2 during Differentiation of Pluripotent Cells. (PMID: 27634302) Oliviero G … Cagney G (Molecular & cellular proteomics : MCP 2016) 3 58

Products for CCDC9 Gene

Sources for CCDC9 Gene

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