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CTR9 Gene

protein-coding   GIFtS: 52
GCID: GC11P010772

CTR9, Paf1/RNA Polymerase II Complex Component

(Previous names: SH2 domain binding protein 1 (tetratricopeptide repeat containing),...)
(Previous symbol: SH2BP1)
  Search for CTR9
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
CTR9, Paf1/RNA Polymerase II Complex Component1 2     Ctr9, Paf1/RNA Polymerase II Complex Component, Homolog (S. Cerevisiae)1
SH2BP11 2 3 5     TSBP2
SH2 Domain Binding Protein 1 (Tetratricopeptide Repeat Containing)1 2     Ctr9, Paf1/RNA Polymerase II Complex Component, Homolog2
SH2 Domain-Binding Protein 12 3     p150TSP2
p1502 5     RNA Polymerase-Associated Protein CTR9 Homolog2
KIAA01553 5     TPR-Containing, SH2-Binding Phosphoprotein2

External Ids:    HGNC: 168501   Entrez Gene: 96462   Ensembl: ENSG000001987307   OMIM: 6093665   UniProtKB: Q6PD623   

Export aliases for CTR9 gene to outside databases

Previous GC identifers: GC11P010730 GC11P010731 GC11P010445


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CTR9 Gene:
CTR9, parafibromin (CDC73; MIM 607393), LEO1 (MIM 610507), and PAF1 (MIM 610506) form the PAF protein complex,
which associates with the RNA polymerase II subunit POLR2A (MIM 180660) and with a histone methyltransferase
complex (Rozenblatt-Rosen et al., 2005 (PubMed 15632063)).(supplied by OMIM, Mar 2008)

GeneCards Summary for CTR9 Gene:
CTR9 (CTR9, Paf1/RNA polymerase II complex component) is a protein-coding gene. GO annotations related to this gene include SH2 domain binding.

UniProtKB/Swiss-Prot: CTR9_HUMAN, Q6PD62
Function: Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA
polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency.
PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non-phosphorylated and 'Ser-2'- and
'Ser-5'-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and
synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for
transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional
activity of KMT2A/MLL1; it promotes leukemogenesis through association with KMT2A/MLL1-rearranged oncoproteins,
such as KMT2A/MLL1-MLLT3/AF9 and KMT2A/MLL1-MLLT1/ENL. PAF1C is involved in histone modifications such as
ubiquitination of histone H2B and methylation on histone H3 'Lys-4' (H3K4me3). PAF1C recruits the RNF20/40 E3
ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination
of 'Lys-120' of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to
transcription. PAF1C is involved in mRNA 3' end formation probably through association with cleavage and poly(A)
factors. In case of infection by influenza A strain H3N2, PAF1C associates with viral NS1 protein, thereby
regulating gene transcription. Required for mono- and trimethylation on histone H3 'Lys-4' (H3K4me3) and
dimethylation on histone H3 'Lys-79' (H3K4me3). Required for Hox gene transcription. Required for the
trimethylation of histone H3 'Lys-4' (H3K4me3) on genes involved in stem cell pluripotency; this function is
synergistic with CXXC1 indicative for an involvement of the SET1 complex. Involved in transcriptional regulation
of IL6-responsive genes and in JAK-STAT pathway; may regulate DNA-association of STAT3 (By similarity)

Gene Wiki entry for CTR9 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Regulatory transcription factor binding sites in the CTR9 gene promoter:
         Elk-1   p53   CUTL1   NF-kappaB   AP-2gamma   NF-kappaB2   AP-2beta   AP-2alpha   NF-kappaB1   AP-2alphaA   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCTR9 promoter sequence
   Search Chromatin IP Primers for CTR9

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CTR9


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

Entrez Gene cytogenetic band: 11p15.3   Ensembl cytogenetic band:  11p15.3   HGNC cytogenetic band: 11p15.3

CTR9 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CTR9 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P010772:  view genomic region     (about GC identifiers)

Start:
10,772,534 bp from pter      End:
10,801,290 bp from pter
Size:
28,757 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: CTR9_HUMAN, Q6PD62 (See protein sequence)
Recommended Name: RNA polymerase-associated protein CTR9 homolog  
Size: 1173 amino acids; 133502 Da
Subunit: Component of the mammalian PAF1 complex, which consists of CDC73, PAF1, LEO1, CTR9, RTF1 and WDR61.
Interacts with KMT2A/MLL1. Interacts with STAT3 (By similarity)
Sequence caution: Sequence=BAA09925.2; Type=Erroneous initiation;
Secondary accessions: D3DQV8 Q15015

Explore the universe of human proteins at neXtProt for CTR9: NX_Q6PD62

Explore proteomics data for CTR9 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys62, Lys379, Lys444, Lys472, Lys645, Lys660, Lys784, Lys798
  • Modification sites at PhosphoSitePlus

  • See CTR9 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_055448.1  
    ENSEMBL proteins: 
     ENSP00000355013   ENSP00000431458  

    CTR9 Human Recombinant Protein Products:

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    OriGene Protein Over-expression Lysate for CTR9
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    Novus Biologicals CTR9 Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp.

     
    Search eBioscience for Proteins for CTR9 

    CTR9 Antibody Products:

    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse R&D Systems for Antibodies
    Cell Signaling Technology (CST) Antibodies for CTR9  (SH2BP1)
    Browse OriGene Antibodies
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    Novus Biologicals CTR9 Antibodies
    Abcam antibodies for CTR9
    Browse Antibodies at Cloud-Clone Corp.
    ThermoFisher Antibodies for CTR9
    LSBio Antibodies in human, mouse, rat for CTR9

    CTR9 Assay Products:

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    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp.
    Browse CLIAs at Cloud-Clone Corp.
    Search eBioscience for ELISAs for CTR9 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    TTC: Tetratricopeptide (TTC) repeat domain containing

    5 InterPro protein domains:
     IPR011990 TPR-like_helical
     IPR001440 TPR_1
     IPR013105 TPR_2
     IPR013026 TPR-contain_dom
     IPR019734 TPR_repeat

    Graphical View of Domain Structure for InterPro Entry Q6PD62

    ProtoNet protein and cluster: Q6PD62

    UniProtKB/Swiss-Prot: CTR9_HUMAN, Q6PD62
    Similarity: Contains 16 TPR repeats


    Find genes that share domains with CTR9           About GenesLikeMe


    (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,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CTR9_HUMAN, Q6PD62
    Function: Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA
    polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency.
    PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non-phosphorylated and 'Ser-2'- and
    'Ser-5'-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and
    synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for
    transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional
    activity of KMT2A/MLL1; it promotes leukemogenesis through association with KMT2A/MLL1-rearranged oncoproteins,
    such as KMT2A/MLL1-MLLT3/AF9 and KMT2A/MLL1-MLLT1/ENL. PAF1C is involved in histone modifications such as
    ubiquitination of histone H2B and methylation on histone H3 'Lys-4' (H3K4me3). PAF1C recruits the RNF20/40 E3
    ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination
    of 'Lys-120' of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to
    transcription. PAF1C is involved in mRNA 3' end formation probably through association with cleavage and poly(A)
    factors. In case of infection by influenza A strain H3N2, PAF1C associates with viral NS1 protein, thereby
    regulating gene transcription. Required for mono- and trimethylation on histone H3 'Lys-4' (H3K4me3) and
    dimethylation on histone H3 'Lys-79' (H3K4me3). Required for Hox gene transcription. Required for the
    trimethylation of histone H3 'Lys-4' (H3K4me3) on genes involved in stem cell pluripotency; this function is
    synergistic with CXXC1 indicative for an involvement of the SET1 complex. Involved in transcriptional regulation
    of IL6-responsive genes and in JAK-STAT pathway; may regulate DNA-association of STAT3 (By similarity)

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI15923622
    GO:0042169SH2 domain binding IEA--
         
    Find genes that share ontologies with CTR9           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for CTR9:
     Wnt reporter upregulated 

         1 MGI phenotypic allele for Ctr9 (no phenotypes)

    Find genes that share phenotypes with CTR9           About GenesLikeMe

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CTR9
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for CTR9
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for CTR9

    miRNA
    Products:
        
    miRTarBase miRNAs that target CTR9:
    hsa-mir-101-3p (MIRT027343), hsa-mir-19b-3p (MIRT031221), hsa-let-7b-5p (MIRT052333), hsa-mir-20a-5p (MIRT050526), hsa-mir-26a-5p (MIRT050110)

    Block miRNA regulation of human, mouse, rat CTR9 using miScript Target Protectors
    8 qRT-PCR Assays for microRNAs that regulate CTR9:
    hsa-miR-130a* hsa-miR-513a-3p hsa-miR-23c hsa-miR-4282 hsa-miR-3692 hsa-miR-23b hsa-miR-629 hsa-miR-23a
    SwitchGear 3'UTR luciferase reporter plasmidCTR9 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for CTR9
    Predesigned siRNA for gene silencing in human, mouse, rat CTR9

    Gene Editing
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    Clone
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    OriGene clones in human, mouse for CTR9 (see all 7)
    OriGene ORF clones in mouse, rat for CTR9
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: CTR9 (NM_014633)
    Sino Biological Human cDNA Clone for CTR9
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CTR9
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CTR9

    Cell Line
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    GenScript Custom overexpressing Cell Line Services for CTR9
    Browse ESI BIO Cell Lines and PureStem Progenitors for CTR9 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CTR9


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    CTR9_HUMAN, Q6PD62: Nucleus speckle (By similarity). Note=Found in speckles (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol2

    Gene Ontology (GO): 4 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ----
    GO:0016593Cdc73/Paf1 complex IDA16307923
    GO:0016607nuclear speck IEA--
    GO:0035327transcriptionally active chromatin ISS--

    Find genes that share ontologies with CTR9           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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    SuperPaths for CTR9 About    
    See pathways by source

    SuperPathContained pathways About
    1Chromatin Regulation / Acetylation
    Chromatin Regulation / Acetylation


    Find genes that share SuperPaths with CTR9           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Cell Signaling Technology (CST) Pathway for CTR9
        Chromatin Regulation / Acetylation



        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for CTR9
    Interactions:

        GeneGlobe Interaction Network for CTR9

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for CTR9 (Q6PD621, 2, 3 ENSP000003550134) via UniProtKB, MINT, STRING, and/or I2D (see all 206)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4AP628053I2D: score=1 
    HIST1H4BP628053I2D: score=1 
    HIST1H4CP628053I2D: score=1 
    HIST1H4DP628053I2D: score=1 
    HIST1H4EP628053I2D: score=1 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 16):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter ISS--
    GO:0001711endodermal cell fate commitment ISS--
    GO:0006351transcription, DNA-templated IEA--
    GO:0007259JAK-STAT cascade ISS--
    GO:0010390histone monoubiquitination IDA16307923

    Find genes that share ontologies with CTR9           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for CTR9



    (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,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for CTR9 gene: 
    NM_014633.3  

    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000361367(uc001mja.3) ENST00000524523 ENST00000526874 ENST00000529355
    ENST00000529898
    miRNA
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    Block miRNA regulation of human, mouse, rat CTR9 using miScript Target Protectors
    8 qRT-PCR Assays for microRNAs that regulate CTR9:
    hsa-miR-130a* hsa-miR-513a-3p hsa-miR-23c hsa-miR-4282 hsa-miR-3692 hsa-miR-23b hsa-miR-629 hsa-miR-23a
    SwitchGear 3'UTR luciferase reporter plasmidCTR9 3' UTR sequence
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for CTR9
    Predesigned siRNA for gene silencing in human, mouse, rat CTR9
    Clone
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    OriGene clones in human, mouse for CTR9 (see all 7)
    OriGene ORF clones in mouse, rat for CTR9
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: CTR9 (NM_014633)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CTR9
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CTR9
    Primer
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    OriGene qPCR primer pairs and template standards for CTR9
    OriGene qSTAR qPCR primer pairs in human, mouse for CTR9
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CTR9
      QuantiTect SYBR Green Assays in human, mouse, rat CTR9
      QuantiFast Probe-based Assays in human, mouse, rat CTR9

    Selected AceView cDNA sequences (see all 251):

    AA907605 BG119201 AW263693 AI192221 D63875 Z36868 AW402514 AI302523 
    AA725733 BF588715 BP361862 BF197335 BM669477 AW338994 AA906369 AI830477 
    BC014335 BM664048 AW070842 AA883364 BM692466 AA903179 AW025837 BM904284 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for CTR9 (see all 6)    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b · 14c ^ 15 ^ 16a · 16b · 16c · 16d ^ 17 ^ 18 ^ 19 ^
    SP1:                                                                                -           -                                                               
    SP2:                                      -                                                                                                                     
    SP3:                                                                                -           -     -                                                         
    SP4:                                                                                            -                                                               
    SP5:                                                                                                                                                            

    ExUns: 20a · 20b ^ 21 ^ 22a · 22b ^ 23 ^ 24 ^ 25
    SP1:  -                       -                     
    SP2:                                                
    SP3:                                                
    SP4:                                                
    SP5:                                                


    ECgene alternative splicing isoforms for CTR9

    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

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    CTR9 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GGTCAGATGA
    CTR9 Expression
    About this image


    CTR9 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 2) fully expand
     
     Limb (Muscoskeletal System)
             Limb Bud
     
     Larynx (Respiratory System)
    CTR9 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CTR9 Protein Expression

    UniProtKB/Swiss-Prot: CTR9_HUMAN, Q6PD62
    Tissue specificity: Widely expressed

        Custom PCR Arrays for CTR9
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    QuantiFast Probe-based Assays in human, mouse, rat CTR9
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CTR9

    (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

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    This gene was present in the common ancestor of eukaryotes.

    Orthologs for CTR9 gene from Selected species (see all 21)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ctr91 , 5 Ctr9, Paf1/RNA polymerase II complex component, homolog more1, 5 90.01(n)1
    97.87(a)1
      7 (57.98 cM)5
    220831  NM_009431.21  NP_033457.21 
     1110289515 
    chicken
    (Gallus gallus)
    Aves CTR91 Ctr9, Paf1/RNA polymerase II complex component, homolog more 83.02(n)
    94.34(a)
      423035  XM_420968.4  XP_420968.3 
    lizard
    (Anolis carolinensis)
    Reptilia CTR96
    CTR9, Paf1/RNA polymerase II complex component
    92(a)
    1 ↔ 1
    1(63340042-63368194)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.19442 Xenopus laevis, Similar to likely ortholog of mouse more 79.3(n)    BC043875.1 
    zebrafish
    (Danio rerio)
    Actinopterygii ctr91 Ctr9, Paf1/RNA polymerase II complex component, homolog more 74.22(n)
    86.25(a)
      100036549  NM_001083583.1  NP_001077052.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG24691 CG2469 63.54(n)
    67.83(a)
      38149  NM_176270.2  NP_788448.1 
    worm
    (Caenorhabditis elegans)
    Secernentea B0464.21 B0464.2 52.27(n)
    43.62(a)
      176335  NM_001268069.1  NP_001254998.1 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes CTR96
    Component of the Paf1p complex involved in transcr...
    23(a)
    1 ↔ 1
    XV(49555-52788) YOL145C
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons ELF81 ELF8 33.8(n)
    15.29(a)
      815177  NM_126631.7  NP_178674.6 
    rice
    (Oryza sativa)
    Liliopsida Os07g04762001 Os07g0476200 48.35(n)
    37.5(a)
      4343217  NM_001066160.1  NP_001059625.1 


    ENSEMBL Gene Tree for CTR9 (if available)
    TreeFam Gene Tree for CTR9 (if available)

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

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      --

    (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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
    About This Section

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    Selected SNPs for CTR9 (see all 717)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1172507161,2
    F--10443704(+) TGATTG/TCCATA 1 -- us2k11Minor allele frequency- T:0.03NA 120
    rs71059181,2
    C,F,A,H--10443843(+) CTGTTG/CTTTCA 1 -- us2k1 tfbs327Minor allele frequency- C:0.15NS EA NA WA CSA 2899
    rs49101861,2
    C,H--10443958(+) ATAAAG/CCCCAG 1 -- us2k1 tfbs312Minor allele frequency- C:0.02NA WA CSA 260
    rs792271931,2
    F--10443982(+) TTCTTA/GTATCA 1 -- us2k11Minor allele frequency- G:0.08WA 118
    rs763380661,2
    F--10444045(+) CTTCTT/CGCAGG 1 -- us2k11Minor allele frequency- C:0.11WA 118
    rs1478856661,2
    --10444182(+) CTAAAC/GTGAGT 1 -- us2k10--------
    rs770711731,2
    C,F--10444202(+) ATTCAA/GTCATA 1 -- us2k11Minor allele frequency- G:0.03WA 118
    rs110429491,2
    C,F,A,H--10444282(+) TTTTAA/GTATCA 1 -- us2k115Minor allele frequency- G:0.17EA NS WA NA 1790
    rs118286021,2
    C,F,H--10444288(+) TATCAG/CGGAGG 1 -- us2k14Minor allele frequency- C:0.10WA NA 244
    rs1831341351,2
    --10444315(+) ATAACA/CATCAC 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for CTR9 (10772534 - 10801290 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for CTR9:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv832063CNV Loss17160897

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CTR9
    DNA2.0 Custom Variant and Variant Library Synthesis for CTR9

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

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    OMIM gene information: 609366    OMIM disorders: --


    Find genes that share disorders with CTR9           About GenesLikeMe

    Genetic Association Database (GAD): CTR9
    Human Genome Epidemiology (HuGE) Navigator: CTR9 (2 documents)

    Export disorders for CTR9 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)
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    PubMed articles for CTR9 gene, integrated from 10 sources (see all 47):
    (articles sorted by number of sources associating them with CTR9)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Prediction of the coding sequences of unidentified human genes. IV. The coding sequences of 40 new genes (KIAA0121-KIAA0160) deduced by analysis of cDNA clones from human cell line KG-1. (PubMed id 8590280)1, 2, 3 Nagase T.... Nomura N. (DNA Res. 1995)
    2. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)1, 2 Rigbolt K.T....Blagoev B. (Sci. Signal. 2011)
    3. The PAF complex synergizes with MLL fusion proteins at HOX loci to promote leukemogenesis. (PubMed id 20541477)1, 2 Muntean A.G.... Hess J.L. (Cancer Cell 2010)
    4. The human PAF1 complex acts in chromatin transcription elongation both independently and cooperatively with SII/TFIIS. (PubMed id 20178742)1, 2 Kim J.... Roeder R.G. (Cell 2010)
    5. A genome-scale RNAi screen for Oct4 modulators defines a role of the Paf1 complex for embryonic stem cell identity. (PubMed id 19345177)1, 2 Ding L.... Buchholz F. (Cell Stem Cell 2009)
    6. SNP combinations in chromosome-wide genes are associated with bone mineral density in Taiwanese women. (PubMed id 18551993)1, 4 Lin G.T....Chang H.W. (Chin J Physiol 2008)
    7. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)1, 2 Beausoleil S.A.... Gygi S.P. (Nat. Biotechnol. 2006)
    8. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (Cell 2006)
    9. The human PAF complex coordinates transcription with events downstream of RNA synthesis. (PubMed id 16024656)1, 2 Zhu B.... Reinberg D. (Genes Dev. 2005)
    10. Monoubiquitination of human histone H2B: the factors involved and their roles in HOX gene regulation. (PubMed id 16307923)1, 2 Zhu B.... Reinberg D. (Mol. Cell 2005)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 9646 HGNC: 16850 AceView: SH2BP1 Ensembl:ENSG00000198730 euGenes: HUgn9646
    ECgene: CTR9 H-InvDB: CTR9

    (According to HUGE)
    About This Section

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    HUGE: KIAA0155

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section

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    NameDescription
    PharmGKB entry for CTR9 Pharmacogenomics, SNPs, Pathways

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

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    Patent Information for CTR9 gene:
    Search GeneIP for patents involving CTR9

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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