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Aliases for CCDC9 Gene

Aliases for CCDC9 Gene

  • Coiled-Coil Domain Containing 9 2 3 5

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. GO annotations related to this gene include poly(A) RNA binding. An important paralog of this gene is C15orf52.

No data available for Entrez Gene 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

Regulatory Elements for CCDC9 Gene

Enhancers for CCDC9 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19F047225 0.4 ENCODE 68.1 -26.6 -26599 8.2 MLX ZFP64 FEZF1 DMAP1 YY1 ZNF416 ZNF143 ZNF548 ZNF263 SP3 ZC3H4 GLTSCR1 CCDC9 ENSG00000268810 GLTSCR2-AS1 ENSG00000269321 SLC1A5 PRKD2 SNORD23 ENSG00000268746
GH19F047105 1 FANTOM5 ENCODE 40.8 -145.7 -145684 9.2 CREB3L1 MLX YBX1 FEZF1 DMAP1 YY1 SLC30A9 ZNF263 SP3 NFYC CCDC9 ZC3H4 C5AR2 PRKD2 GLTSCR1 SNORD23 DHX34 TPRX2P ELSPBP1 GLTSCR2-AS1
GH19F047209 1.4 Ensembl ENCODE 39.7 -45.6 -45575 2.6 HDGF PKNOX1 MLX CREB3L1 ARID4B SIN3A ZNF143 KLF13 ZNF263 REST ZC3H4 GLTSCR2-AS1 GLTSCR1 ENSG00000268810 CCDC9 BBC3 MIR3191 SLC1A5 SAE1 TMEM160
GH19F047239 0.9 FANTOM5 Ensembl ENCODE 38.9 -13.8 -13780 6.4 CREB3L1 ZFP64 DMAP1 YBX1 YY1 SLC30A9 ZNF143 ZNF416 ZNF548 ZNF263 ZC3H4 GLTSCR1 ENSG00000268810 ENSG00000269321 CCDC9 GLTSCR2-AS1 EHD2 SLC1A5 PRKD2 TPRX2P
GH19F047271 0.7 FANTOM5 ENCODE 38.2 +18.4 18367 4.7 HDGF PKNOX1 CREB3L1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 CCDC9 ZC3H4 GLTSCR1 ENSG00000268810 GLTSCR2-AS1 SLC1A5 EHD2 SNORD23 C5AR2 DHX34
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around CCDC9 on UCSC Golden Path with GeneCards custom track

Promoters for CCDC9 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000347753 920 2201 HDGF PKNOX1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 ZNF143

Genomic Location for CCDC9 Gene

Chromosome:
19
Start:
47,255,980 bp from pter
End:
47,271,953 bp from pter
Size:
15,974 bases
Orientation:
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:
    Q9Y3X0-CCDC9_HUMAN
    Recommended name:
    Coiled-coil domain-containing protein 9
    Protein Accession:
    Q9Y3X0

    Protein attributes for CCDC9 Gene

    Size:
    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

Protein Domains for CCDC9 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CCDC9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

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

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

Function for CCDC9 Gene

Gene Ontology (GO) - Molecular Function for CCDC9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21044950
GO:0044822 poly(A) RNA binding IDA 22658674
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

miRNA for CCDC9 Gene

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

COMPARTMENTS
Jensen Localization Image for CCDC9 Gene COMPARTMENTS Subcellular localization image for CCDC9 gene
Compartment Confidence
nucleus 3
cytosol 2

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

Pathways & Interactions for CCDC9 Gene

SuperPathways for CCDC9 Gene

No Data Available

Gene Ontology (GO) - Biological Process for CCDC9 Gene

None

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

Transcripts for CCDC9 Gene

Unigene Clusters for CCDC9 Gene

Coiled-coil domain containing 9:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

No ASD Table

Relevant External Links for CCDC9 Gene

GeneLoc Exon Structure for
CCDC9
ECgene alternative splicing isoforms for
CCDC9

Expression for CCDC9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and 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:

CCDC9

SOURCE GeneReport for Unigene cluster for CCDC9 Gene:

Hs.227782
genes like me logo Genes that share expression patterns with CCDC9: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt 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
chimpanzee
(Pan troglodytes)
Mammalia CCDC9 34 35
  • 99.18 (n)
dog
(Canis familiaris)
Mammalia CCDC9 34
  • 83.66 (n)
-- 35
  • 81 (a)
OneToMany
-- 35
  • 65 (a)
OneToMany
cow
(Bos Taurus)
Mammalia CCDC9 34 35
  • 83.4 (n)
mouse
(Mus musculus)
Mammalia Ccdc9 34 16 35
  • 80.23 (n)
oppossum
(Monodelphis domestica)
Mammalia CCDC9 35
  • 62 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CCDC9 35
  • 46 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.18808 34
zebrafish
(Danio rerio)
Actinopterygii ccdc9 34 35
  • 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

ENSEMBL:
Gene Tree for CCDC9 (if available)
TreeFam:
Gene Tree for CCDC9 (if available)

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 Sequence Context AA Info Type
rs1035388 -- 47,260,028(-) GGCTT(C/T)CTTGC intron-variant
rs1035389 -- 47,260,014(-) TCCCA(C/G)AACAT intron-variant
rs1035390 -- 47,259,870(-) TGAGC(A/G)CCCTG intron-variant
rs10406000 -- 47,257,450(+) GGGAA(A/C)GGCGG intron-variant, upstream-variant-2KB
rs10407675 -- 47,265,908(+) gtctc(G/T)atctc intron-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)

Relevant External Links for CCDC9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CCDC9

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

Disorders for CCDC9 Gene

Relevant External Links for CCDC9

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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. Towards 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 Res. 2001) 2 3 4 64
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  4. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3 64
  5. Immunoaffinity enrichment and mass spectrometry analysis of protein methylation. (PMID: 24129315) Guo A. … Comb M.J. (Mol. Cell. Proteomics 2014) 4 64

Products for CCDC9 Gene

Sources for CCDC9 Gene

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