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

C10orf90 Gene

protein-coding   GIFtS: 43
GCID: GC10M128113

Chromosome 10 Open Reading Frame 90

  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Chromosome 10 Open Reading Frame 901 2
Fragile-Site Associated Tumor Suppressor Homolog2 3
FATS2 3
Fragile-Site Associated Tumor Suppressor1
bA422P15.22
Centrosomal Protein C10orf902

External Ids:    HGNC: 265631   Entrez Gene: 1186112   Ensembl: ENSG000001544937   UniProtKB: Q96M023   

Export aliases for C10orf90 gene to outside databases

Previous GC identifers: GC10M127687 GC10M128103 GC10M121800


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

GeneCards Summary for C10orf90 Gene: 
C10orf90 (chromosome 10 open reading frame 90) is a protein-coding gene. Diseases associated with C10orf90 include breast cancer. GO annotations related to this gene include histone deacetylase binding. An important paralog of this gene is ALMS1.

UniProtKB/Swiss-Prot: CJ090_HUMAN, Q96M02
Function: Tumor suppressor that is required to sustain G2/M checkpoint after DNA damage. Mediates CDKN1A/p21
protein stability in a ubiquitin-independent manner (By similarity). May have a role in the assembly of primary
cilia




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000010.10  NT_030059.13  NC_018921.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the C10orf90 gene promoter:
         HOXA9B   HOXA9   TBP   Meis-1b   E47   FOXL1   c-Rel   GATA-6   TFIID   Meis-1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for C10orf90

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat C10orf90


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

Entrez Gene cytogenetic band: 10q26.2   Ensembl cytogenetic band:  10q26.2   HGNC cytogenetic band: 10q26.2

C10orf90 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
C10orf90 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M128113:  view genomic region     (about GC identifiers)

Start:
128,113,566 bp from pter      End:
128,359,079 bp from pter
Size:
245,514 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: CJ090_HUMAN, Q96M02 (See protein sequence)
Recommended Name: Centrosomal protein C10orf90  
Size: 699 amino acids; 77910 Da
Subunit: Interacts with HDAC1; the interaction prevents binding of HDAC1 to CDKN1A/p21 and facilitates the
acetylation and stabilization of CDKN1A/p21 (By similarity)
Subcellular location: Cytoplasm. Cytoplasm, cytoskeleton, microtubule organizing center, centrosome.
Note=Localizes to the actin cytoskeleton in a proportion of cells. Colocalizes with centriolar acetylated tubulin
Sequence caution: Sequence=AAM20911.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=CAI12409.1; Type=Erroneous gene model prediction; Sequence=CAI40680.1; Type=Erroneous gene model
prediction;
Secondary accessions: B9EIQ9 Q5JRP6 Q5T023 Q8NCV5 Q8WU75
Alternative splicing: 2 isoforms:  Q96M02-1   Q96M02-2   

Explore the universe of human proteins at neXtProt for C10orf90: NX_Q96M02

Explore proteomics data for C10orf90 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q96M02

  • C10orf90 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    C10orf90 Protein Expression
    REFSEQ proteins: NP_001004298.2  
    ENSEMBL proteins: 
     ENSP00000411609   ENSP00000474753   ENSP00000349318   ENSP00000405995   ENSP00000474558  
     ENSP00000474615   ENSP00000444369   ENSP00000284694   ENSP00000398786   ENSP00000376459  

    Human Recombinant Protein Products for C10orf90: 
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    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IDA--
    GO:0005813centrosome IDA--
    GO:0015629actin cytoskeleton IDA--

    C10orf90 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    ProtoNet protein and cluster: Q96M02


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CJ090_HUMAN, Q96M02
    Function: Tumor suppressor that is required to sustain G2/M checkpoint after DNA damage. Mediates CDKN1A/p21
    protein stability in a ubiquitin-independent manner (By similarity). May have a role in the assembly of primary
    cilia

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0042826histone deacetylase binding IEA--
         
    C10orf90 for ontologies           About GeneDecksing


    Animal Models:
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    SwitchGear 3'UTR luciferase reporter plasmidC10orf90 3' UTR sequence
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for C10orf90

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for C10orf90 (Q96M023 ENSP000002846944) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBCP0CG483, ENSP000003448184I2D: score=1 STRING: ENSP00000344818
    About this table

    Gene Ontology (GO): 5/6 biological process terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006974response to DNA damage stimulus ----
    GO:0007095mitotic G2 DNA damage checkpoint IEA--
    GO:0009411response to UV IEA--
    GO:0010212response to ionizing radiation IEA--
    GO:0030308negative regulation of cell growth IEA--

    C10orf90 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, 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 C10orf90 (CJ090)

    Search CenterWatch for drugs/clinical trials and news about C10orf90 / CJ090

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, 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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for C10orf90 gene: 
    NM_001004298.2  

    Unigene Cluster for C10orf90:

    Chromosome 10 open reading frame 90
    Hs.587663  [show with all ESTs]
    Unigene Representative Sequence: NM_001004298
    11 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000424927 ENST00000480379 ENST00000356858(uc001ljp.3 uc010qum.2)
    ENST00000432642 ENST00000368674(uc001ljs.1) ENST00000488181 ENST00000463082
    ENST00000544758(uc009yao.2) ENST00000284694(uc001ljq.3) ENST00000454341
    ENST00000392694
    miRNA
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    8 QIAGEN miScript miRNA Assays for microRNAs that regulate C10orf90:
    hsa-miR-587 hsa-miR-548am hsa-miR-214 hsa-miR-548x hsa-miR-2116 hsa-miR-4273 hsa-miR-548c-3p hsa-miR-761
    SwitchGear 3'UTR luciferase reporter plasmidC10orf90 3' UTR sequence
    Inhib. RNA
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat C10orf90

    Additional mRNA sequence: 

    AF435960.1 AK057500.1 AK093093.1 AK297577.1 AK308357.1 AK309217.1 BC021140.1 BC034828.1 
    BC140898.1 BC146869.1 

    11 DOTS entries:

    DT.100746880  DT.97804391  DT.100015162  DT.99932776  DT.91789898  DT.40240116  DT.121264242  DT.121264260 
    DT.121264283  DT.40127119  DT.95121312 

    24/45 AceView cDNA sequences (see all 45):

    CR602784 AK093093 BM907872 NM_001004298 BQ431025 CA423069 CB108421 AA989352 
    BQ214690 AX747917 CA429607 BM674479 BU618481 CR621517 BQ775403 BX283654 
    BC034828 BQ681161 AL519529 AL705063 AA994255 BU194912 AI969684 BM717101 

    GeneLoc Exon Structure

    5/8 Alternative Splicing Database (ASD) splice patterns (SP) for C10orf90 (see all 8)    About this scheme

    ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16 ^ 17
    SP1:                                -                 -                 -           -           -     -                     
    SP2:                                                  -     -     -     -           -           -     -                     
    SP3:                                                                    -           -           -     -                     
    SP4:                                                                                -           -     -                     
    SP5:              -     -           -                                                                                       


    ECgene alternative splicing isoforms for C10orf90

    (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

    C10orf90 expression in normal human tissues (normalized intensities)      C10orf90 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    C10orf90 Expression
    About this image


    C10orf90 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/5 selected tissues (see all 5) fully expand
     
     Ovary (Reproductive System)
             oocyte   
     
     Melanocytes (Integumentary System)
             Human EpiDermal Melanocytes-medium (HEM-m)   
     
     Epidermis (Integumentary System)
             Human EpiDermal Melanocytes-medium (HEM-m)   
     
     Uncategorized (Uncategorized)
             PureStem Progenitor EN13
     
     Testis (Reproductive System)

    See C10orf90 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for C10orf90

    SOURCE GeneReport for Unigene cluster: Hs.587663
        SABiosciences Custom PCR Arrays for C10orf90
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for C10orf90

    (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 C10orf90 gene from 2/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia D7Ertd443e1 , 5 DNA segment, Chr 7, ERATO Doi 443, expressed1, 5 76.33(n)1
    67.83(a)1
      7 (78.40 cM)5
    710071  NM_001199941.11  NP_001186870.11 
     1342662625 
    chicken
    (Gallus gallus)
    Aves C6H10orf901 chromosome 6 open reading frame, human C10orf90 61.75(n)
    50.41(a)
      423959  XM_421818.3  XP_421818.3 


    ENSEMBL Gene Tree for C10orf90 (if available)
    TreeFam Gene Tree for C10orf90 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for C10orf90 gene
    ALMS12  

    C10orf90 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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

    10/2174 SNPs in C10orf90 are shown (see all 2174)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1477355341,2
    Cuntested1128174221(+) AACCTC/TGGAAA 1 -- int10--------
    rs1400076761,2
    C--128113211(+) GCAGCA/GGGAGG 1 -- int10--------
    rs109016091,2
    C,F,A,H--128113320(+) GTAAGA/GTTTAG 1 -- int121Minor allele frequency- G:0.16NS EA NA WA 2350
    rs2017350781,2
    C--128113373(+) CTTTTC/GTCTTA 1 -- int10--------
    rs760575611,2
    C,F--128113430(+) CAAGTA/GCTTCC 1 -- int11Minor allele frequency- G:0.33EA 120
    rs38126781,2
    C,F--128113585(-) AAATGC/TAATTA 1 -- ut316Minor allele frequency- T:0.18WA NA CSA EA 364
    rs1444460561,2
    C--128113625(+) GTTCTC/TAGCTT 1 -- ut310--------
    rs1395073551,2
    C--128113681(+) AAGAAC/TAGACA 1 -- ut310--------
    rs1451786461,2
    C--128113739(+) TGGGGC/TGGGGC 1 -- ut310--------
    rs38126771,2
    C,F,A,H--128113799(-) AAGAAT/GCCATT 1 -- ut319Minor allele frequency- G:0.19EA NA WA 1820

    HapMap Linkage Disequilibrium report for C10orf90 (128113566 - 128359079 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 5 variations for C10orf90:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2677894CNV Deletion23128226
    esv2743062CNV Deletion23290073
    nsv7602CNV Loss18451855
    nsv525054CNV Loss19592680
    nsv521809CNV Loss19592680

    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    2 diseases for C10orf90:    About MalaCards
    breast cancer    


    C10orf90 for disorders           About GeneDecksing

    Genetic Association Database (GAD): C10orf90

    Export disorders for C10orf90 gene to outside databases

    (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 C10orf90 gene, integrated from 9 sources (see all 16):
    (articles sorted by number of sources associating them with C10orf90)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. An HDAC1-binding domain within FATS bridges p21 turno ver to radiation-induced tumorigenesis. (PubMed id 20154723)1, 3 Li Z....Cai W.W. (2010)
    2. FATS is a transcriptional target of p53 and associate d with antitumor activity. (PubMed id 20843368)1, 3 Zhang X....Li Z. (2010)
    3. Centriolar association of ALMS1 and likely centrosoma l functions of the ALMS motif-containing proteins C10orf90 and KIAA1731. (PubMed id 20844083)1, 2 Knorz V.J....Hearn T. (2010)
    4. 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)
    5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    6. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)1, 2 Deloukas P.... Rogers J. (2004)
    7. Genome-wide association study of monoamine metabolite levels in human cerebrospinal fluid. (PubMed id 23319000)1 Luykx J.J....Ophoff R.A. (2013)
    8. Expression level of novel tumor suppressor gene FATS i s associated with the outcome of node positive breast cancer. (PubMed id 22040499)1 Zhang J....Li Z. (2011)
    9. A genome-wide association study for blood lipid phenotypes in the Framingham Heart Study. (PubMed id 17903299)4 Kathiresan S....Cupples L.A. (2007)
    10. Genome-wide association to body mass index and waist circumference: the Framingham Heart Study 100K project. (PubMed id 17903300)4 Fox C.S....Atwood L.D. (2007)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 118611 HGNC: 26563 AceView: C10orf90 Ensembl:ENSG00000154493 euGenes: HUgn118611
    ECgene: C10orf90 H-InvDB: C10orf90

    (According to HUGE)
    About This Section
      --

    (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 C10orf90 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    IP news from LifeMap Sciences, Inc.)
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    Patent Information for C10orf90 gene:
    Search GeneIP for patents involving C10orf90

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