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Aliases for CTR9 Gene

Aliases for CTR9 Gene

  • CTR9, Paf1/RNA Polymerase II Complex Component 2 3
  • SH2BP1 3 4 6
  • SH2 Domain Binding Protein 1 (Tetratricopeptide Repeat Containing) 2 3
  • SH2 Domain-Binding Protein 1 3 4
  • KIAA0155 4 6
  • P150 3 6
  • Ctr9, Paf1/RNA Polymerase II Complex Component, Homolog (S. Cerevisiae) 2
  • Ctr9, Paf1/RNA Polymerase II Complex Component, Homolog 3
  • RNA Polymerase-Associated Protein CTR9 Homolog 3
  • TPR-Containing, SH2-Binding Phosphoprotein 3
  • P150TSP 3
  • TSBP 3

External Ids for CTR9 Gene

Previous HGNC Symbols for CTR9 Gene

  • SH2BP1

Previous GeneCards Identifiers for CTR9 Gene

  • GC11P010730
  • GC11P010731
  • GC11P010445

Summaries for CTR9 Gene

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. Among its related pathways are Chromatin Regulation / Acetylation. GO annotations related to this gene include SH2 domain binding.

UniProtKB/Swiss-Prot for CTR9 Gene

  • 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

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CTR9 Gene

Genomics for CTR9 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for CTR9 Gene

Start:
10,750,987 bp from pter
End:
10,779,743 bp from pter
Size:
28,757 bases
Orientation:
Plus strand

Genomic View for CTR9 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CTR9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CTR9 Gene

Proteins for CTR9 Gene

  • Protein details for CTR9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6PD62-CTR9_HUMAN
    Recommended name:
    RNA polymerase-associated protein CTR9 homolog
    Protein Accession:
    Q6PD62
    Secondary Accessions:
    • D3DQV8
    • Q15015

    Protein attributes for CTR9 Gene

    Size:
    1173 amino acids
    Molecular mass:
    133502 Da
    Quaternary structure:
    • 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).
    SequenceCaution:
    • Sequence=BAA09925.2; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for CTR9 Gene

Proteomics data for CTR9 Gene at MOPED

Post-translational modifications for CTR9 Gene

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

Other Protein References for CTR9 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CTR9 Gene

Domains for CTR9 Gene

Gene Families for CTR9 Gene

HGNC:
  • TTC :Tetratricopeptide (TTC) repeat domain containing

Protein Domains for CTR9 Gene

Suggested Antigen Peptide Sequences for CTR9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q6PD62

UniProtKB/Swiss-Prot:

CTR9_HUMAN :
  • Q6PD62
Similarity:
  • Contains 16 TPR repeats.
genes like me logo Genes that share domains with CTR9: view

Function for CTR9 Gene

Molecular function for CTR9 Gene

UniProtKB/Swiss-Prot 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) - Molecular Function for CTR9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000993 RNA polymerase II core binding IBA --
GO:0005515 protein binding IPI 15923622
GO:0042169 SH2 domain binding IEA --
genes like me logo Genes that share ontologies with CTR9: view

Phenotypes for CTR9 Gene

GenomeRNAi human phenotypes for CTR9:
genes like me logo Genes that share phenotypes with CTR9: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for CTR9 Gene

Localization for CTR9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CTR9 Gene

Nucleus speckle. Note=Found in speckles. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CTR9 Gene COMPARTMENTS Subcellular localization image for CTR9 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for CTR9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus --
GO:0016593 Cdc73/Paf1 complex IDA 16307923
GO:0016607 nuclear speck IEA --
GO:0035327 transcriptionally active chromatin ISS --
genes like me logo Genes that share ontologies with CTR9: view

Pathways for CTR9 Gene

genes like me logo Genes that share pathways with CTR9: view

Pathways by source for CTR9 Gene

1 Cell Signaling Technology pathway for CTR9 Gene

Gene Ontology (GO) - Biological Process for CTR9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter ISS --
GO:0001711 endodermal cell fate commitment ISS --
GO:0006351 transcription, DNA-templated IEA --
GO:0007259 JAK-STAT cascade ISS --
GO:0010390 histone monoubiquitination IDA 16307923
genes like me logo Genes that share ontologies with CTR9: view

Transcripts for CTR9 Gene

mRNA/cDNA for CTR9 Gene

Unigene Clusters for CTR9 Gene

Ctr9, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CTR9

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CTR9 Gene

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:
SP6:

ExUns: 20a · 20b ^ 21 ^ 22a · 22b ^ 23 ^ 24 ^ 25
SP1: - -
SP2:
SP3:
SP4:
SP5:
SP6:

Relevant External Links for CTR9 Gene

GeneLoc Exon Structure for
CTR9
ECgene alternative splicing isoforms for
CTR9

Expression for CTR9 Gene

mRNA expression in normal human tissues for CTR9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for CTR9 Gene

SOURCE GeneReport for Unigene cluster for CTR9 Gene Hs.725151

mRNA Expression by UniProt/SwissProt for CTR9 Gene

Q6PD62-CTR9_HUMAN
Tissue specificity: Widely expressed.
genes like me logo Genes that share expressions with CTR9: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for CTR9 Gene

Orthologs for CTR9 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CTR9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CTR9 35
  • 99.7 (n)
  • 99.91 (a)
CTR9 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CTR9 35
  • 91.33 (n)
  • 97.87 (a)
CTR9 36
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CTR9 35
  • 93.38 (n)
  • 98.47 (a)
CTR9 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ctr9 35
  • 90.01 (n)
  • 97.87 (a)
Ctr9 16
Ctr9 36
  • 98 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CTR9 36
  • 95 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 81 (a)
OneToMany
-- 36
  • 94 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Ctr9 35
  • 89.78 (n)
  • 97.95 (a)
chicken
(Gallus gallus)
Aves CTR9 35
  • 83.02 (n)
  • 94.34 (a)
CTR9 36
  • 95 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CTR9 36
  • 92 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.1944 35
tropical clawed frog
(Silurana tropicalis)
Amphibia ctr9 35
  • 74.5 (n)
  • 88.2 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.8444 35
zebrafish
(Danio rerio)
Actinopterygii ctr9 35
  • 74.22 (n)
  • 86.25 (a)
ctr9 36
  • 87 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001559 35
  • 63.62 (n)
  • 72.15 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG2469 35
  • 63.54 (n)
  • 67.83 (a)
CG2469 36
  • 59 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea B0464.2 35
  • 52.27 (n)
  • 43.62 (a)
B0464.2 36
  • 38 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CTR9 36
  • 23 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons ELF8 35
  • 33.8 (n)
  • 15.29 (a)
rice
(Oryza sativa)
Liliopsida Os07g0476200 35
  • 48.35 (n)
  • 37.5 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.9648 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5656 36
  • 71 (a)
OneToOne
Species with no ortholog for CTR9:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CTR9 Gene

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

Paralogs for CTR9 Gene

No data available for Paralogs for CTR9 Gene

Variants for CTR9 Gene

Sequence variations from dbSNP and Humsavar for CTR9 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type MAF
rs6699 -- 10,779,639(+) AATCA(C/G)AAATG utr-variant-3-prime
rs998907 -- 10,770,827(-) CCTGG(G/T)GGCAG intron-variant
rs1390576 -- 10,753,138(+) AAACA(C/T)TTCCC intron-variant
rs1390577 -- 10,753,169(+) ATTAG(A/G)TTCTG intron-variant
rs1811655 -- 10,767,502(+) GTGTG(G/T)CTATC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CTR9 Gene

Variant ID Type Subtype PubMed ID
nsv832063 CNV Loss 17160897

Relevant External Links for CTR9 Gene

HapMap Linkage Disequilibrium report
CTR9
Human Gene Mutation Database (HGMD)
CTR9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CTR9 Gene

Disorders for CTR9 Gene

Relevant External Links for CTR9

Genetic Association Database (GAD)
CTR9
Human Genome Epidemiology (HuGE) Navigator
CTR9
genes like me logo Genes that share disorders with CTR9: view

No data available for UniProtKB/Swiss-Prot for CTR9 Gene

Publications for CTR9 Gene

  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. (PMID: 8590280) Nagase T. … Nomura N. (DNA Res. 1995) 2 3 4
  2. p150TSP, a conserved nuclear phosphoprotein that contains multiple tetratricopeptide repeats and binds specifically to SH2 domains. (PMID: 8636124) Malek S.N. … Desiderio S. (J. Biol. Chem. 1996) 2 3
  3. The human PAF complex coordinates transcription with events downstream of RNA synthesis. (PMID: 16024656) Zhu B. … Reinberg D. (Genes Dev. 2005) 3 4
  4. Monoubiquitination of human histone H2B: the factors involved and their roles in HOX gene regulation. (PMID: 16307923) Zhu B. … Reinberg D. (Mol. Cell 2005) 3 4
  5. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PMID: 16964243) Beausoleil S.A. … Gygi S.P. (Nat. Biotechnol. 2006) 3 4

Products for CTR9 Gene

Sources for CTR9 Gene

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