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Aliases for CCDC58 Gene

Aliases for CCDC58 Gene

  • Coiled-Coil Domain Containing 58 2 3 5

External Ids for CCDC58 Gene

Previous GeneCards Identifiers for CCDC58 Gene

  • GC03M123562
  • GC03M122078
  • GC03M119451

Summaries for CCDC58 Gene

GeneCards Summary for CCDC58 Gene

CCDC58 (Coiled-Coil Domain Containing 58) is a Protein Coding gene.

Additional gene information for CCDC58 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 CCDC58 Gene

Genomics for CCDC58 Gene

GeneHancer (GH) Regulatory Elements for CCDC58 Gene

Promoters and enhancers for CCDC58 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03I122381 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 550.8 -0.3 -307 3.6 HDGF PKNOX1 SMAD1 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 FAM162A CCDC58 WDR5B LOC102723582
GH03I122414 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 10.6 -32.9 -32877 2.7 HDGF PKNOX1 SMAD1 ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B ZNF207 WDR5B LOC102723582 ENSG00000242531 FAM162A CCDC58
GH03I122073 Promoter/Enhancer 2 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 9.9 +305.9 305851 7.1 HDGF PKNOX1 FOXA2 BMI1 BATF IRF4 ZNF143 ATF7 ETV6 BCLAF1 CD86 ENSG00000202388 DTX3L PARP9 CCDC58 FAM162A IQCB1 EAF2 CSTA HCLS1
GH03I122482 Enhancer 1 Ensembl ENCODE 10.3 -99.9 -99887 1.5 HDGF SMAD1 BATF IRF4 RFX5 GTF3C2 SMARCC2 ATF7 ETV6 FOS GC03P122484 ENSG00000275348 WDR5B LOC102723582 KPNA1 FAM162A CCDC58
GH03I122081 Enhancer 1 FANTOM5 dbSUPER 9.8 +301.6 301553 0.2 PKNOX1 BACH1 BATF IRF4 RELA ATF7 ETV6 IKZF2 RUNX3 ZNF687 ILDR1 ENSG00000202388 CSTA CCDC58 FAM162A CD86 EAF2 CASR
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CCDC58 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CCDC58 gene promoter:

Genomic Locations for CCDC58 Gene

Genomic Locations for CCDC58 Gene
chr3:122,359,589-122,383,281
(GRCh38/hg38)
Size:
23,693 bases
Orientation:
Minus strand
chr3:122,078,436-122,102,078
(GRCh37/hg19)

Genomic View for CCDC58 Gene

Genes around CCDC58 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CCDC58 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CCDC58 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CCDC58 Gene

Proteins for CCDC58 Gene

  • Protein details for CCDC58 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q4VC31-CCD58_HUMAN
    Recommended name:
    Coiled-coil domain-containing protein 58
    Protein Accession:
    Q4VC31
    Secondary Accessions:
    • Q32LY6

    Protein attributes for CCDC58 Gene

    Size:
    144 amino acids
    Molecular mass:
    16620 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CCDC58 Gene

Post-translational modifications for CCDC58 Gene

  • Ubiquitination at posLast=100100
  • Modification sites at PhosphoSitePlus

Other Protein References for CCDC58 Gene

No data available for DME Specific Peptides for CCDC58 Gene

Domains & Families for CCDC58 Gene

Gene Families for CCDC58 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for CCDC58 Gene

Suggested Antigen Peptide Sequences for CCDC58 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q4VC31

UniProtKB/Swiss-Prot:

CCD58_HUMAN :
  • Belongs to the CCDC58 family.
Family:
  • Belongs to the CCDC58 family.
genes like me logo Genes that share domains with CCDC58: view

Function for CCDC58 Gene

Phenotypes From GWAS Catalog for CCDC58 Gene

genes like me logo Genes that share phenotypes with CCDC58: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CCDC58 Gene

Localization for CCDC58 Gene

Subcellular locations from

COMPARTMENTS
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 CCDC58 gene
Compartment Confidence
mitochondrion 4
nucleus 3
extracellular 2
cytoskeleton 2
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Mitochondria (2)
  • Nucleoli (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CCDC58 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005739 mitochondrion IBA --
genes like me logo Genes that share ontologies with CCDC58: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for CCDC58 Gene

Pathways & Interactions for CCDC58 Gene

SuperPathways for CCDC58 Gene

No Data Available

Gene Ontology (GO) - Biological Process for CCDC58 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for CCDC58 Gene

Drugs & Compounds for CCDC58 Gene

No Compound Related Data Available

Transcripts for CCDC58 Gene

Unigene Clusters for CCDC58 Gene

Coiled-coil domain containing 58:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CCDC58 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b
SP1: -
SP2: - -
SP3:

Relevant External Links for CCDC58 Gene

GeneLoc Exon Structure for
CCDC58
ECgene alternative splicing isoforms for
CCDC58

Expression for CCDC58 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CCDC58 Gene

Protein differential expression in normal tissues from HIPED for CCDC58 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (13.0), Liver (6.7), and Liver, secretome (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CCDC58 Gene



Protein tissue co-expression partners for CCDC58 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CCDC58 Gene:

CCDC58

SOURCE GeneReport for Unigene cluster for CCDC58 Gene:

Hs.220594
genes like me logo Genes that share expression patterns with CCDC58: 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 , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for CCDC58 Gene

Orthologs for CCDC58 Gene

This gene was present in the common ancestor of animals.

Orthologs for CCDC58 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CCDC58 33
  • 99.54 (n)
cow
(Bos Taurus)
Mammalia CCDC58 33 34
  • 96.53 (n)
dog
(Canis familiaris)
Mammalia CCDC58 33 34
  • 96.06 (n)
rat
(Rattus norvegicus)
Mammalia Ccdc58 33
  • 95.6 (n)
mouse
(Mus musculus)
Mammalia Ccdc58 33 16 34
  • 94.68 (n)
oppossum
(Monodelphis domestica)
Mammalia CCDC58 34
  • 88 (a)
OneToOne
chicken
(Gallus gallus)
Aves CCDC58 33 34
  • 83.1 (n)
lizard
(Anolis carolinensis)
Reptilia CCDC58 34
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ccdc58 33
  • 72.92 (n)
Str.6520 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.7053 33
zebrafish
(Danio rerio)
Actinopterygii ccdc58 33 34
  • 70.56 (n)
zgc73369 33
fruit fly
(Drosophila melanogaster)
Insecta CG15881 33 34
  • 50.26 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005402 33
  • 50.12 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5031 34
  • 44 (a)
OneToOne
Species where no ortholog for CCDC58 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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 CCDC58 Gene

ENSEMBL:
Gene Tree for CCDC58 (if available)
TreeFam:
Gene Tree for CCDC58 (if available)

Paralogs for CCDC58 Gene

No data available for Paralogs for CCDC58 Gene

Variants for CCDC58 Gene

Sequence variations from dbSNP and Humsavar for CCDC58 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1000077139 -- 122,366,139(-) C/T intron_variant
rs1000103587 -- 122,378,154(-) G/A genic_upstream_transcript_variant, intron_variant
rs1000111323 -- 122,384,564(-) C/A upstream_transcript_variant
rs1000300821 -- 122,372,455(-) T/C intron_variant
rs1000374654 -- 122,365,809(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CCDC58 Gene

Variant ID Type Subtype PubMed ID
esv2574672 CNV deletion 19546169
esv2677337 CNV deletion 23128226
esv33139 CNV loss 17666407
esv3568993 CNV loss 25503493
esv3597607 CNV loss 21293372
nsv3973 CNV deletion 18451855

Variation tolerance for CCDC58 Gene

Residual Variation Intolerance Score: 40.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.33; 7.33% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CCDC58 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CCDC58

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CCDC58 Gene

Disorders for CCDC58 Gene

Additional Disease Information for CCDC58

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for CCDC58 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CCDC58 Gene

Publications for CCDC58 Gene

  1. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson SL … O'Brien SJ (PloS one 2010) 3 44 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. Mitochondrial Protein Interaction Mapping Identifies Regulators of Respiratory Chain Function. (PMID: 27499296) Floyd BJ … Pagliarini DJ (Molecular cell 2016) 3 58
  4. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C … Emili A (Nature 2015) 3 58
  5. N-terminome analysis of the human mitochondrial proteome. (PMID: 25944712) Vaca Jacome AS … Carapito C (Proteomics 2015) 4 58

Products for CCDC58 Gene

Sources for CCDC58 Gene

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