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C5orf56 Gene(RNA Gene)

Chromosome 5 Open Reading Frame 56

GCID:
GC05P132410
GIFtS:
32
Genes Participants
UDN Logo

Aliases for C5orf56 Gene

Subcategory (RNA class) for C5orf56 Gene

ncRNA

Quality Score for this RNA gene is

3

Aliases for C5orf56 Gene

  • Chromosome 5 Open Reading Frame 56 2 3 5

External Ids for C5orf56 Gene

Previous GeneCards Identifiers for C5orf56 Gene

  • GC05P131775
  • GC05P126938

Summaries for C5orf56 Gene

GeneCards Summary for C5orf56 Gene

C5orf56 (Chromosome 5 Open Reading Frame 56) is an RNA Gene, and is affiliated with the ncRNA class.

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 C5orf56 Gene

Genomics for C5orf56 Gene

Products:

  1. Regulatory Element

Regulatory Elements for C5orf56 Gene

Enhancers for C5orf56 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
GH05G132452 2.1 FANTOM5 Ensembl ENCODE dbSUPER 12 +56.6 56608 29.7 CREB3L1 MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 IL4 AFF4 IRF1 SLC22A5 RAD50 LOC102723741 MIR3936HG C5orf56 ENSG00000202533 LOC105379175
GH05G132433 1.8 FANTOM5 Ensembl ENCODE dbSUPER 12.9 +27.0 27001 7.3 PKNOX1 RAD21 RARA YY1 EGR1 SCRT2 FOS ETV6 IKZF2 EGR2 LOC105379175 SLC22A5 IRF1 C5orf56 ENSG00000202533 MIR3936HG KIF3A SLC22A4 LOC102723741 GC05P132469
GH05G132384 1.5 Ensembl ENCODE dbSUPER 12.4 -23.0 -22952 6.6 HDGF WRNIP1 ARID4B SIN3A ZNF48 ZBTB7B YY1 GLIS2 ELK1 ZNF143 MIR3936HG SLC22A5 RAD50 ENSG00000248648 C5orf56 IRF1 ENSG00000202533 LOC105379175 LOC102723741 SOWAHA
GH05G132443 1.2 Ensembl ENCODE dbSUPER 12.6 +35.1 35081 4.1 NFIB TEAD4 MAX CEBPG EBF1 ZIC2 RAD21 YY1 ZNF316 EED ENSG00000202533 LOC105379175 C5orf56 MIR3936HG SLC22A5 LOC102723741 GC05P132469
GH05G132448 1.2 Ensembl ENCODE dbSUPER 12.6 +37.6 37565 0.4 KLF1 CEBPG ATF2 ZNF274 JUND SMARCA4 ATF3 IKZF1 ZBTB33 TRIM24 RAD50 LOC105379175 C5orf56 AFF4 IL4 ENSG00000202533 ZCCHC10 SLC22A5 MIR3936HG GC05P132469
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around C5orf56 on UCSC Golden Path with GeneCards custom track

Promoters for C5orf56 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000186851 264 1401 PKNOX1 CREB3L1 ARNT AGO1 SIN3A DMAP1 YY1 ZNF766 ZNF143 ZNF207

Transcription factor binding sites by QIAGEN in the C5orf56 gene promoter:

Genomic Location for C5orf56 Gene

Chromosome:
5
Start:
132,410,636 bp from pter
End:
132,488,702 bp from pter
Size:
78,067 bases
Orientation:
Plus strand

Genomic View for C5orf56 Gene

Genes around C5orf56 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
C5orf56 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for C5orf56 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for C5orf56 Gene

Proteins for C5orf56 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for C5orf56 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N8D9-CE056_HUMAN
    Recommended name:
    Uncharacterized protein C5orf56
    Protein Accession:
    Q8N8D9
    Secondary Accessions:
    • A1L3V9
    • A6NKA0

    Protein attributes for C5orf56 Gene

    Size:
    126 amino acids
    Molecular mass:
    14652 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for C5orf56 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for C5orf56 Gene

Post-translational modifications for C5orf56 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for C5orf56 Gene

ENSEMBL proteins:

No data available for DME Specific Peptides for C5orf56 Gene

Domains & Families for C5orf56 Gene

Protein Domains for C5orf56 Gene

ProtoNet:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with C5orf56: view

No data available for Gene Families , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for C5orf56 Gene

Function for C5orf56 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Phenotypes for C5orf56 Gene

GenomeRNAi human phenotypes for C5orf56:
genes like me logo Genes that share phenotypes with C5orf56: view

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for C5orf56 Gene

Localization for C5orf56 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 C5orf56 gene
Compartment Confidence
extracellular 2
mitochondrion 2
nucleus 2
cytosol 2

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for C5orf56 Gene

Pathways & Interactions for C5orf56 Gene

SuperPathways for C5orf56 Gene

PathCards logo More details on SuperPathways for C5orf56
No Data Available

Interacting Proteins for C5orf56 Gene

Gene Ontology (GO) - Biological Process for C5orf56 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for C5orf56 Gene

Drugs & Compounds for C5orf56 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for C5orf56 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for C5orf56 Gene

(4) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(49) Selected AceView cDNA sequences:
(7) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for C5orf56 Gene

Chromosome 5 open reading frame 56:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for C5orf56 Gene

No ASD Table

Relevant External Links for C5orf56 Gene

GeneLoc Exon Structure for
C5orf56
ECgene alternative splicing isoforms for
C5orf56

Expression for C5orf56 Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for C5orf56 Gene

mRNA expression in normal human tissues for C5orf56 Gene
mRNA expression by GTEx for C5orf56 Gene

NURSA nuclear receptor signaling pathways regulating expression of C5orf56 Gene:

C5orf56

SOURCE GeneReport for Unigene cluster for C5orf56 Gene:

Hs.658288
genes like me logo Genes that share expression patterns with C5orf56: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for C5orf56 Gene

Orthologs for C5orf56 Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for C5orf56 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia C5orf56 35
  • 99 (a)
 OneToOne
Species where no ortholog for C5orf56 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)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for C5orf56 Gene

ENSEMBL:
Gene Tree for C5orf56 (if available)
TreeFam:
Gene Tree for C5orf56 (if available)

Paralogs for C5orf56 Gene

No data available for Paralogs for C5orf56 Gene

Variants for C5orf56 Gene

Sequence variations from dbSNP and Humsavar for C5orf56 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs1000009581 -- 132,436,559(+) TGATT(A/G)TACAT intron-variant
rs1000045924 -- 132,439,765(+) CACTG(A/C)TGTCT intron-variant
rs1000047544 -- 132,449,949(+) CAGTT(G/T)GTTGT intron-variant
rs1000192681 -- 132,475,409(+) CAGGC(C/T)TCTGT intron-variant, upstream-variant-2KB
rs1000196491 -- 132,458,526(+) TAATT(C/T)GGAAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for C5orf56 Gene

Variant ID Type Subtype PubMed ID
nsv1161299 CNV deletion 26073780
nsv462452 CNV gain 19166990
nsv471048 CNV gain 18288195
nsv5002 CNV insertion 18451855
nsv599713 CNV gain 21841781
nsv950391 CNV duplication 24416366

Variation tolerance for C5orf56 Gene

Gene Damage Index Score: 0.88; 18.26% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for C5orf56 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
C5orf56

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for C5orf56 Gene

Disorders for C5orf56 Gene

Relevant External Links for C5orf56

Genetic Association Database (GAD)
C5orf56
Human Genome Epidemiology (HuGE) Navigator
C5orf56
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
C5orf56

No disorders were found for C5orf56 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for C5orf56 Gene

Publications for C5orf56 Gene

  1. Analysis of 39 Crohn's disease risk loci in Swedish inflammatory bowel disease patients. (PMID: 19760754) TAPrkvist L. … Pettersson S. (Inflamm. Bowel Dis. 2010) 3 46 64
  2. Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci. (PMID: 21102463) Franke A. … Parkes M. (Nat. Genet. 2010) 3 46 64
  3. Fucosyltransferase 2 (FUT2) non-secretor status is associated with Crohn's disease. (PMID: 20570966) McGovern D.P. … Rotter J.I. (Hum. Mol. Genet. 2010) 3 46 64
  4. Molecular reclassification of Crohn's disease by cluster analysis of genetic variants. (PMID: 20886065) Cleynen I. … Vermeire S. (PLoS ONE 2010) 3 46 64
  5. Association of novel genetic Loci with circulating fibrinogen levels: a genome-wide association study in 6 population-based cohorts. (PMID: 20031576) Dehghan A. … Folsom A.R. (Circ Cardiovasc Genet 2009) 3 46 64

Products for C5orf56 Gene

Sources for C5orf56 Gene

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