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

C16orf89 Gene

protein-coding   GIFtS: 42
GCID: GC16M005035

Chromosome 16 Open Reading Frame 89

  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 16 Open Reading Frame 891 2
UPF0764 Protein C16orf892

External Ids:    HGNC: 286871   Entrez Gene: 1465562   Ensembl: ENSG000001534467   UniProtKB: Q6UX733   

Export aliases for C16orf89 gene to outside databases


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

Entrez Gene summary for C16orf89 Gene:
This gene is expressed predominantly in the thyroid. Based on expression patterns similar to thyroid transcription
factors and proteins, this gene may function in the development and function of the thyroid. Multiple transcript
variants encoding different isoforms have been found for this gene. (provided by RefSeq, Oct 2011)

GeneCards Summary for C16orf89 Gene: 
C16orf89 (chromosome 16 open reading frame 89) is a protein-coding gene. Diseases associated with C16orf89 include thyroiditis.




(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_000016.9  NT_010393.16  NC_018927.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the C16orf89 gene promoter:
         STAT1   p53   STAT4   STAT1beta   STAT5A   XBP-1   STAT1alpha   Zic1   STAT2   STAT3   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for C16orf89

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat C16orf89


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

Entrez Gene cytogenetic band: 16p13.3   Ensembl cytogenetic band:  16p13.3   HGNC cytogenetic band: 16p13.3

C16orf89 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
C16orf89 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16M005035:  view genomic region     (about GC identifiers)

Start:
5,094,123 bp from pter      End:
5,116,111 bp from pter
Size:
21,989 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: CP089_HUMAN, Q6UX73 (See protein sequence)
Recommended Name: UPF0764 protein C16orf89 precursor  
Size: 402 amino acids; 45391 Da
Subunit: Homodimer
Subcellular location: Secreted
Sequence caution: Sequence=AAH33681.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Sequence=AAQ88847.1; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=BAC11494.1;
Type=Miscellaneous discrepancy; Note=Aberrant splicing; Sequence=EAW85244.1; Type=Erroneous initiation;
Note=Translation N-terminally shortened;
Secondary accessions: B4DUM5 Q8N2I3 Q8N4T1
Alternative splicing: 2 isoforms:  Q6UX73-1   Q6UX73-2   (Major isoform, represents 80% of transcripts)

Explore the universe of human proteins at neXtProt for C16orf89: NX_Q6UX73

Explore proteomics data for C16orf89 at MOPED 

Post-translational modifications:

  • UniProtKB: Glycosylated
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q6UX73

  • C16orf89 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    C16orf89 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001091984.2  NP_689672.4  

    ENSEMBL proteins: 
     ENSP00000417158   ENSP00000420566   ENSP00000324672   ENSP00000390402   ENSP00000283478  

    Human Recombinant Protein Products for C16orf89: 
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    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for C16orf89 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region IEA--

    C16orf89 for ontologies           About GeneDecksing



    C16orf89 Antibody Products: 
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    Assay Products for C16orf89: 
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    Cloud-Clone Corp. ELISAs for C16orf89 
    Cloud-Clone Corp. CLIAs for C16orf89


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

    ProtoNet protein and cluster: Q6UX73

    1 Blocks protein domain: IPB001545 Gonadotropin

    UniProtKB/Swiss-Prot: CP089_HUMAN, Q6UX73
    Similarity: Belongs to the UPF0764 family


    (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 MGI phenotypic allele for AU021092 (no phenotypes)

    C16orf89 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out AU021092tm1Lex for C16orf89

       inGenious Targeting Laboratory - Custom generated mouse model solutions for C16orf89 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for C16orf89

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    miRNA
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for C16orf89


    (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 C16orf89

    (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 C16orf89 (CP089)

    Search CenterWatch for drugs/clinical trials and news about C16orf89 / CP089

    (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 C16orf89 gene (2 alternative transcripts): 
    NM_001098514.2  NM_152459.4  

    Unigene Cluster for C16orf89:

    Chromosome 16 open reading frame 89
    Hs.11782  [show with all ESTs]
    Unigene Representative Sequence: NM_152459
    8 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000586629 ENST00000474471 ENST00000472572 ENST00000315997 ENST00000592343
    ENST00000591875 ENST00000422873(uc002cyk.4) ENST00000350219(uc010bud.3)

    miRNA
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    1 QIAGEN miScript miRNA Assays for microRNA that regulate C16orf89:
    hsa-miR-3175
    SwitchGear 3'UTR luciferase reporter plasmidC16orf89 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
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    Sirion Biotech Customized lentivirus for stable overexpression of C16orf89 
                         Customized lentivirus expression plasmids for stable overexpression of C16orf89 
    Primer
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    OriGene qPCR primer pairs and template standards for C16orf89
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat C16orf89
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat C16orf89

    Additional mRNA sequence: 

    AK075242.1 AK300708.1 AY358483.1 BC033681.1 

    4 DOTS entries:

    DT.100741932  DT.97793329  DT.210110  DT.75165060 

    24/69 AceView cDNA sequences (see all 69):

    BF871511 BQ917270 BF871021 BC033681 CD637848 BF337477 BM706955 BX090681 
    NM_152459 BG707780 BM663315 BI765378 BV179917 AI433699 BM906008 AI673086 
    N34942 BM971997 CD637847 BG702313 N44008 AI373281 AI823572 BP349238 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for C16orf89    About this scheme

    ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b
    SP1:                                      -                                             
    SP2:                                      -                 -                           
    SP3:                                      -                 -                 -         
    SP4:                                                                                    


    ECgene alternative splicing isoforms for C16orf89

    (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

    C16orf89 expression in normal human tissues (normalized intensities)      C16orf89 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CCAGCTGCCT
    C16orf89 Expression
    About this image


    C16orf89 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/3 selected tissues (see all 3) fully expand
     
     Liver (Hepatobiliary System)
             Mature Mesothelial Cells Hepatic Mesenchyme
     
     Lung (Respiratory System)
     
     Ovary (Reproductive System)

    See C16orf89 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for C16orf89

    SOURCE GeneReport for Unigene cluster: Hs.11782

    UniProtKB/Swiss-Prot: CP089_HUMAN, Q6UX73
    Tissue specificity: Predominantly expressed in thyroid tissue

        SABiosciences Custom PCR Arrays for C16orf89
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    In Situ
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for C16orf89

    (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 C16orf89 gene from 3/9 species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia AU0210921 , 5 expressed sequence AU0210921, 5 77.36(n)1
    71.35(a)1
      16 (2.51 cM)5
    2396911  NM_001033220.31  NP_001028392.21 
     52118285 
    chicken
    (Gallus gallus)
    Aves C14H16orf891 chromosome 14 open reading frame, human C16orf89 55.43(n)
    41.01(a)
      416394  XM_414708.3  XP_414708.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC5661731 uncharacterized LOC566173 50.88(n)
    42.72(a)
      566173  XM_689448.3  XP_694540.3 


    ENSEMBL Gene Tree for C16orf89 (if available)
    TreeFam Gene Tree for C16orf89 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for C16orf89 gene
    18/21 SIMAP similar genes for C16orf89 using alignment to 2 protein entries:     CP089_HUMAN (see all proteins) (see all similar genes):
    ZNF169    LINC00596    NF2    AURA2    KIAA1651    FAM138A
    FAM138B    FAM138C    FAM138F    CASP7    FAM138D    AGBL3
    DNAPTP3    FAM175A    HKR1    C4orf22    GLT8D2    EIF3L

    C16orf89 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

    10/794 SNPs in C16orf89 are shown (see all 794)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 16 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1482489881,2
    Cuntested15045297(+) CTGTCC/TGTCCT 4 T syn10--------
    rs563735871,2
    C,F--5030394(+) CTTTAA/GGATAT 2 -- int17Minor allele frequency- G:0.20WA NA CSA EA 366
    rs740064061,2
    C,F--5030396(+) TTAAGA/GTATCA 2 -- int12Minor allele frequency- G:0.07WA 120
    rs1822721971,2
    --5030456(+) GTAATC/GCCAGC 2 -- int10--------
    rs353293391,2
    C,F--5030512(+) GAGACC/TAGCCA 2 -- int15Minor allele frequency- T:0.08NA WA 244
    rs1455997111,2
    --5030531(+) TAGTGA/GGATCC 2 -- int10--------
    rs1488791731,2
    --5030677(+) GACCTC/TATCTA 2 -- int10--------
    rs1425914721,2
    --5030736(+) AGTGGA/GATTGG 2 -- int10--------
    rs37438391,2
    C,F,H--5030798(-) TTGAGT/CCTTGT 2 -- int17Minor allele frequency- C:0.01EA NS NA 1166
    rs80572041,2
    C,H--5030879(+) TGGCCC/TTGCCT 2 -- ut3118Minor allele frequency- T:0.01NS EA NA WA CSA 773

    HapMap Linkage Disequilibrium report for C16orf89 (5094123 - 5116111 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 10/13 variations for C16orf89 (see all 13):    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2422516CNV Deletion17116639
    dgv477e199CNV Deletion23128226
    nsv905254CNV Loss21882294
    nsv1722CNV Loss18451855
    nsv827532CNV Loss20364138
    nsv457360CNV Loss19166990
    nsv9340CNV Loss18304495
    nsv817715CNV Gain17921354
    esv25186CNV Gain19812545
    nsv428318CNV Gain18775914

    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 C16orf89:    About MalaCards
    thyroiditis    


    C16orf89 for disorders           About GeneDecksing


    Export disorders for C16orf89 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 C16orf89 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with C16orf89)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Initial characterization of C16orf89, a novel thyroid -specific gene. (PubMed id 20578903)1, 2, 3 Afink G.B....Ris-Stalpers C. (2010)
    2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2, 3 Clark H.F.... Gray A.M. (2003)
    3. Signal sequence and keyword trap in silico for selection of full- length human cDNAs encoding secretion or membrane proteins from oligo- capped cDNA libraries. (PubMed id 16303743)1, 2 Otsuki T....Isogai T. (2005)
    4. Dynamics of cullin-RING ubiquitin ligase network revea led by systematic quantitative proteomics. (PubMed id 21145461)1 Bennett E.J....Harper J.W. (2010)
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    6. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
    7. A transcript finishing initiative for closing gaps in the human transcriptome. (PubMed id 15197164)1 Sogayar M.C....Zanette D.L. (2004)
    8. 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: 146556 HGNC: 28687 AceView: MGC45438 Ensembl:ENSG00000153446 euGenes: HUgn146556
    ECgene: C16orf89 H-InvDB: C16orf89

    (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 C16orf89 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 C16orf89 gene:
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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