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

C1orf109 Gene

protein-coding   GIFtS: 41
GCID: GC01M038147

Chromosome 1 Open Reading Frame 109

  Search for C1orf109
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 1 Open Reading Frame 1091 2
Uncharacterized Protein C1orf1092

External Ids:    HGNC: 260391   Entrez Gene: 549552   Ensembl: ENSG000001169227   OMIM: 6147995   UniProtKB: Q9NX043   

Export aliases for C1orf109 gene to outside databases

Previous GC identifers: GC01M037817 GC01M037919 GC01M036264


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

GeneCards Summary for C1orf109 Gene: 
C1orf109 (chromosome 1 open reading frame 109) is a protein-coding gene.


(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_000001.10  NT_032977.9  NC_018912.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the C1orf109 gene promoter:
         POU2F2 (Oct-2.1)   Oct-B1   oct-B3   oct-B2   AML1a   Nkx2-2   POU2F2   AREB6   POU2F1   POU2F1a   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for C1orf109

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat C1orf109


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

Entrez Gene cytogenetic band: 1p34.3   Ensembl cytogenetic band:  1p34.3   HGNC cytogenetic band: 1p34.3

C1orf109 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
C1orf109 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M038147:  view genomic region     (about GC identifiers)

Start:
38,147,242 bp from pter      End:
38,157,914 bp from pter
Size:
10,673 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: CA109_HUMAN, Q9NX04 (See protein sequence)
Recommended Name: Uncharacterized protein C1orf109  
Size: 203 amino acids; 23373 Da
Secondary accessions: D3DPT1 Q8WVD1
Alternative splicing: 2 isoforms:  Q9NX04-1   Q9NX04-2   

Explore the universe of human proteins at neXtProt for C1orf109: NX_Q9NX04

Explore proteomics data for C1orf109 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9NX04

  • C1orf109 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    C1orf109 Protein Expression
    REFSEQ proteins: NP_060320.1  
    ENSEMBL proteins: 
     ENSP00000350704  

    Human Recombinant Protein Products for C1orf109: 
    Browse Purified and Recombinant Proteins at EMD Millipore
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    OriGene Protein Over-expression Lysate for C1orf109
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    GenScript Custom Assay Services for C1orf109
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    Cloud-Clone Corp. ELISAs for C1orf109 
    Cloud-Clone Corp. CLIAs for C1orf109


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

    ProtoNet protein and cluster: Q9NX04

    1 Blocks protein domain: IPB001092 Basic helix-loop-helix dimerization domain bHLH


    (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

    Phenotypes:
         1 GenomeRNAi human phenotype for C1orf109:
     Decreased circadian period len 

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for C1orf109 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for C1orf109

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for C1orf109 
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    miRNA
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    hsa-miR-875-3p hsa-miR-492 hsa-miR-631 hsa-miR-3120-3p hsa-miR-331-3p hsa-miR-3661
    SwitchGear 3'UTR luciferase reporter plasmidC1orf109 3' UTR sequence
    Inhib. RNA
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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 C1orf109

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    5/10 Interacting proteins for C1orf109 (Q9NX043 ENSP000003507044) via UniProtKB, MINT, STRING, and/or I2D (see all 10)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ENSG00000215641P143733I2D: score=1 
    ENSG00000229006P143733I2D: score=1 
    ENSG00000234495P143733I2D: score=1 
    ENSG00000237071P143733I2D: score=1 
    TRIM27P143733I2D: score=1 
    About this table

    (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 C1orf109 (CA109)

    Search CenterWatch for drugs/clinical trials and news about C1orf109 / CA109

    (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 C1orf109 gene: 
    NM_017850.1  

    Unigene Cluster for C1orf109:

    Chromosome 1 open reading frame 109
    Hs.272673  [show with all ESTs]
    Unigene Representative Sequence: AK092319
    12 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000358011(uc010oig.2 uc001cbo.3 uc001cbp.3) ENST00000494120(uc001cbn.3 uc001cbq.1)
    ENST00000464178 ENST00000464085 ENST00000491981 ENST00000461359 ENST00000477060
    ENST00000486637 ENST00000491797 ENST00000488137 ENST00000472584 ENST00000498448

    miRNA
    Products:
         
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    6 QIAGEN miScript miRNA Assays for microRNAs that regulate C1orf109:
    hsa-miR-875-3p hsa-miR-492 hsa-miR-631 hsa-miR-3120-3p hsa-miR-331-3p hsa-miR-3661
    SwitchGear 3'UTR luciferase reporter plasmidC1orf109 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for C1orf109
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat C1orf109
    Clone
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    OriGene clones in human, mouse for C1orf109 (see all 8)
    OriGene ORF clones in mouse, rat for C1orf109
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    GenScript: all cDNA clones in your preferred vector: C1orf109 (NM_017850)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for C1orf109
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    Sirion Biotech Customized lentivirus for stable overexpression of C1orf109 
                         Customized lentivirus expression plasmids for stable overexpression of C1orf109 
    Primer
    Products:
        
    OriGene qPCR primer pairs and template standards for C1orf109
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat C1orf109
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat C1orf109

    Additional mRNA sequence: 

    AK000515.1 AK056029.1 AK092319.1 AK299377.1 AK316093.1 BC018109.1 BC063843.1 

    9 DOTS entries:

    DT.120377  DT.97842517  DT.91764704  DT.100778197  DT.100778201  DT.100778200  DT.100778198  DT.97842516 
    DT.121370147 

    24/85 AceView cDNA sequences (see all 85):

    AL700226 CA430119 BU733490 AW073333 AW419169 AI088110 AA974192 AI671687 
    BM716236 AI193810 BU507518 CD723255 BC063843 BU620932 AK056029 BC018109 
    BQ921777 AK000515 CA866384 BE889198 AU280671 BU602272 BG504155 AW662573 

    GeneLoc Exon Structure

    5/17 Alternative Splicing Database (ASD) splice patterns (SP) for C1orf109 (see all 17)    About this scheme

    ExUns: 1a · 1b · 1c · 1d · 1e · 1f ^ 2a · 2b ^ 3a · 3b · 3c · 3d · 3e · 3f ^ 4 ^ 5 ^ 6a · 6b · 6c · 6d · 6e ^ 7a · 7b · 7c ^ 8a · 8b ·
    SP1:                                            -     -     -     -     -           -     -                       -     -     -                                 
    SP2:                                            -     -     -     -     -           -     -                                   -                                 
    SP3:                                                                                -     -                                   -                       -         
    SP4:                                                                                      -                                   -                       -         
    SP5:                                -     -     -     -     -     -     -     -     -     -                                   -                       -         

    ExUns: 8c ^ 9a · 9b
    SP1:                  
    SP2:                  
    SP3:                  
    SP4:                  
    SP5:                  


    ECgene alternative splicing isoforms for C1orf109

    (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

    C1orf109 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    C1orf109 Expression
    About this image


    See C1orf109 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for C1orf109

    SOURCE GeneReport for Unigene cluster: Hs.272673
        SABiosciences Custom PCR Arrays for C1orf109
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for C1orf109

    (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 C1orf109 gene from 4/10 species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia 9930104L06Rik1 , 5 RIKEN cDNA 9930104L06 gene1, 5 80.95(n)1
    78.82(a)1
      4 (57.94 cM)5
    1942681  NM_177573.31  NP_808241.21 
     1249370485 
    chicken
    (Gallus gallus)
    Aves C23H1orf1091 chromosome 23 open reading frame, human C1orf109 54.02(n)
    40.51(a)
      419612  XM_417759.3  XP_417759.3 
    lizard
    (Anolis carolinensis)
    Reptilia C1ORF1096
    Uncharacterized protein
    43(a)
    1 ↔ 1
    GL343426.1(554829-556602)
    zebrafish
    (Danio rerio)
    Actinopterygii c1orf1091 c1orf109 homolog (H. sapiens) 49.74(n)
    37.95(a)
      286778  NM_173269.1  NP_775376.1 


    ENSEMBL Gene Tree for C1orf109 (if available)
    TreeFam Gene Tree for C1orf109 (if available)

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

    (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

    10/204 SNPs in C1orf109 are shown (see all 204)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1913742201,2
    --38146915(+) GTCACC/TGTCAT 1 -- int10--------
    rs783343511,2
    C,F--38147029(+) TCTGCA/CATCCA 1 -- int11Minor allele frequency- C:0.03WA 118
    rs783663751,2
    F--38147068(+) ACTTCG/ATTTGA 1 -- int11Minor allele frequency- A:0.02EA 120
    rs5102081,2
    C,F,A,H--38147166(+) TTCCCT/CGGTGG 1 -- int128Minor allele frequency- C:0.17NS EA NA WA CSA 2778
    rs1153869061,2
    F--38147323(+) ATAATA/TGTTAT 1 -- ut311Minor allele frequency- T:0.01NA 120
    rs1433785851,2
    C--38147339(+) AGATGA/GATAAC 1 -- ut310--------
    rs1160234921,2
    C,F--38147340(+) GATGGA/GTAACG 1 -- ut311Minor allele frequency- G:0.03WA 118
    rs1471677031,2
    C--38147380(+) TGTAAC/TCAGAA 1 -- ut310--------
    rs1834613331,2
    --38147409(+) AGGCAA/GACACA 1 -- ut310--------
    rs412673291,2
    C--38147472(+) TAATAC/TATTCA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for C1orf109 (38147242 - 38157914 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for C1orf109:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv819737CNV Loss19587683
    nsv834746CNV Loss17160897

    SABiosciences Cancer Mutation PCR Assays
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    DNA2.0 Custom Variant and Variant Library Synthesis for C1orf109

    (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

    C1orf109 for disorders           About MalaCards
    OMIM gene information: 614799    OMIM disorders: --


    C1orf109 for disorders           About GeneDecksing


    Export disorders for C1orf109 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 C1orf109 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with C1orf109)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification and characterization of a novel gene, c 1orf109, encoding a CK2 substrate that is involved in cancer cell proliferation. (PubMed id 22548824)1, 3 Liu S.S....Li Y. (2012)
    2. 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)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    5. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    6. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
    7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 54955 HGNC: 26039 AceView: FLJ20508 Ensembl:ENSG00000116922 euGenes: HUgn54955
    ECgene: C1orf109 H-InvDB: C1orf109

    (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 C1orf109 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for C1orf109 gene:
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