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CPSF3 Gene

protein-coding   GIFtS: 62
GCID: GC02P009563

Cleavage And Polyadenylation Specific Factor 3, 73kDa

(Previous names: cleavage and polyadenylation specific factor 3, 73kD subunit)
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(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
Cleavage And Polyadenylation Specific Factor 3, 73kDa1 2     Cleavage And Polyadenylation Specificity Factor Subunit 32
CPSF732 3     EC 3.1.27.-3
MRNA 3'-End-Processing Endonuclease CPSF-732 3     Cleavage And Polyadenylation Specificity Factor 73 KDa Subunit3
Cleavage And Polyadenylation Specific Factor 3, 73kD Subunit1     CPSF 73 KDa Subunit3
CPSF-732     EC 3.1.278

External Ids:    HGNC: 23261   Entrez Gene: 516922   Ensembl: ENSG000001192037   OMIM: 6060295   UniProtKB: Q9UKF63   

Export aliases for CPSF3 gene to outside databases

Previous GC identifers: GC02P009347 GC02P009615 GC02P009585 GC02P009514


(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 CPSF3 Gene:
This gene encodes a member of the metallo-beta-lactamase family. The encoded protein is a 73kDa subunit of the
cleavage and polyadenylation specificity factor and functions as an endonuclease that recognizes the pre-mRNA
3'-cleavage site AAUAAA prior to polyadenylation. It also cleaves after the pre-mRNA sequence ACCCA during
histone 3'-end pre-mRNA processing. (provided by RefSeq, Oct 2012)

GeneCards Summary for CPSF3 Gene:
CPSF3 (cleavage and polyadenylation specific factor 3, 73kDa) is a protein-coding gene. GO annotations related to this gene include endoribonuclease activity and RNA binding. An important paralog of this gene is CPSF3L.

UniProtKB/Swiss-Prot: CPSF3_HUMAN, Q9UKF6
Function: Component of the cleavage and polyadenylation specificity factor (CPSF) complex that play a key role in
pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and
other factors to bring about cleavage and poly(A) addition. Has endonuclease activity, and functions as mRNA
3'-end-processing endonuclease. Also involved in the histone 3'-end pre-mRNA processing. U7 snRNP-dependent
protein that induces both the 3'-endoribonucleolytic cleavage of histone pre-mRNAs and acts as a 5' to 3'
exonuclease for degrading the subsequent downstream cleavage product (DCP) of mature histone mRNAs. Cleavage
occurs after the 5'-ACCCA-3' sequence in the histone pre-mRNA leaving a 3'hydroxyl group on the upstream fragment
containing the stem loop (SL) and 5' phosphate on the downstream cleavage product (DCP) starting with CU
nucleotides. The U7-dependent 5' to 3' exonuclease activity is processive and degrades the DCP RNA substrate even
after complete removal of the U7-binding site. Binds to the downstream cleavage product (DCP) of histone
pre-mRNAs and the cleaved DCP RNA substrate in a U7 snRNP dependent manner

Gene Wiki entry for CPSF3 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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RefSeq DNA sequence at NCBI GenBank:
NC_000002.11  NT_005334.17  NC_018913.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the CPSF3 gene promoter:
         p53   MAZR   Egr-1   Olf-1   HNF-1A   POU2F1   POU2F1a   HNF-1   Pax-4a   RSRFC4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCPSF3 promoter sequence
   Search Chromatin IP Primers for CPSF3

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CPSF3


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

Entrez Gene cytogenetic band: 2p25.1   Ensembl cytogenetic band:  2p25.1   HGNC cytogenetic band: 2p25.1

CPSF3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CPSF3 gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P009563:  view genomic region     (about GC identifiers)

Start:
9,563,697 bp from pter      End:
9,613,230 bp from pter
Size:
49,534 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: CPSF3_HUMAN, Q9UKF6 (See protein sequence)
Recommended Name: Cleavage and polyadenylation specificity factor subunit 3  
Size: 684 amino acids; 77486 Da
Cofactor: Binds 2 zinc ions per subunit
Subunit: Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of CPSF1,
CPSF2, CPSF3, CPSF4 and FIP1L1. Interacts with CPSF2, CSTF2 and SYMPK. Interacts with TUT1; the interaction is
direct and mediates the recruitment of the CPSF complex on the 3'UTR of pre-mRNAs. Interacts with WDR33
2 PDB 3D structures from and Proteopedia for CPSF3:
2I7T (3D)        2I7V (3D)    
Secondary accessions: O14769 Q53RS2 Q96F36

Explore the universe of human proteins at neXtProt for CPSF3: NX_Q9UKF6

Explore proteomics data for CPSF3 at MOPED

Post-translational modifications: 

  • Sumoylated on Lys-462, Lys-465 and Lys-545, preferentially by SUMO31
  • Ubiquitination2 at Lys295, Lys306, Lys428, Lys487
  • Modification sites at PhosphoSitePlus
  • Selected DME Specific Peptides for CPSF3 (Q9UKF6) (see all 14)
     LILDEYW  SHFHLDH  FDDIGPSV  TKAIYRWL 


    See CPSF3 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_057291.1  
    ENSEMBL proteins: 
     ENSP00000238112   ENSP00000419744   ENSP00000418957  
    Reactome Protein details: Q9UKF6

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    Search eBioscience for ELISAs for CPSF3 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    4 InterPro protein domains:
     IPR011108 RMMBL
     IPR001279 Beta-lactamas-like
     IPR022712 Beta_Casp
     IPR021718 CPSF73-100_C

    Graphical View of Domain Structure for InterPro Entry Q9UKF6

    ProtoNet protein and cluster: Q9UKF6

    1 Blocks protein domain: IPB011108 RNA-metabolising metallo-beta-lactamase

    UniProtKB/Swiss-Prot: CPSF3_HUMAN, Q9UKF6
    Similarity: Belongs to the metallo-beta-lactamase superfamily. RNA-metabolizing metallo-beta-lactamase-like
    family. CPSF3 subfamily


    Find genes that share domains with CPSF3           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: CPSF3_HUMAN, Q9UKF6
    Function: Component of the cleavage and polyadenylation specificity factor (CPSF) complex that play a key role in
    pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and
    other factors to bring about cleavage and poly(A) addition. Has endonuclease activity, and functions as mRNA
    3'-end-processing endonuclease. Also involved in the histone 3'-end pre-mRNA processing. U7 snRNP-dependent
    protein that induces both the 3'-endoribonucleolytic cleavage of histone pre-mRNAs and acts as a 5' to 3'
    exonuclease for degrading the subsequent downstream cleavage product (DCP) of mature histone mRNAs. Cleavage
    occurs after the 5'-ACCCA-3' sequence in the histone pre-mRNA leaving a 3'hydroxyl group on the upstream fragment
    containing the stem loop (SL) and 5' phosphate on the downstream cleavage product (DCP) starting with CU
    nucleotides. The U7-dependent 5' to 3' exonuclease activity is processive and degrades the DCP RNA substrate even
    after complete removal of the U7-binding site. Binds to the downstream cleavage product (DCP) of histone
    pre-mRNAs and the cleaved DCP RNA substrate in a U7 snRNP dependent manner

         Enzyme Numbers (IUBMB): EC 3.1.272 EC 3.1.27.-1

         Gene Ontology (GO): Selected molecular function terms (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003723RNA binding ISS--
    GO:0004521endoribonuclease activity ISS--
    GO:0005515protein binding IPI18288197
    GO:00084095'-3' exonuclease activity ISS--
    GO:0016787hydrolase activity ----
         
    Find genes that share ontologies with CPSF3           About GenesLikeMe


    Phenotypes:
         3 GenomeRNAi human phenotypes for CPSF3:
     Decreased NANOG protein expres  Decreased OCT4 protein express  Decreased POU5F1-GFP protein e 

         1 MGI mutant phenotype (inferred from 1 allele(MGI details for Cpsf3):
     mortality/aging 

    Find genes that share phenotypes with CPSF3           About GenesLikeMe

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CPSF3
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    miRNA
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    Block miRNA regulation of human, mouse, rat CPSF3 using miScript Target Protectors
    1 qRT-PCR Assays for microRNA that regulate CPSF3:
    hsa-miR-3919
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    Gene Editing
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    GenScript: all cDNA clones in your preferred vector: CPSF3 (NM_016207)
    Sino Biological Human cDNA Clone for CPSF3
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CPSF3

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    (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
    CPSF3_HUMAN, Q9UKF6: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol2
    plasma membrane1

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005654nucleoplasm TAS--
    GO:0005847mRNA cleavage and polyadenylation specificity factor complex IDA18305108
    GO:0030529ribonucleoprotein complex IEA--

    Find genes that share ontologies with CPSF3           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 CPSF3 About   (see all 7)  
    See pathways by source

    SuperPathContained pathways About
    1mRNA Splicing - Major Pathway
    mRNA Splicing - Major Pathway0.78
    mRNA Splicing0.78
    Processing of Capped Intron-Containing Pre-mRNA0.78
    mRNA processing0.44
    2RNA Polymerase II Transcription Termination
    RNA Polymerase II Transcription Termination0.80
    Processing of Capped Intronless Pre-mRNA0.52
    Cleavage of Growing Transcript in the Termination Region0.80
    Processing of Intronless Pre-mRNAs0.00
    mRNA 3-end processing0.80
    3Regulation of Glucokinase by Glucokinase Regulatory Protein
    Transport of Mature mRNAs Derived from Intronless Transcripts0.92
    Transport of Mature mRNA Derived from an Intronless Transcript0.91
    4Transport of Mature Transcript to Cytoplasm
    Transport of Mature Transcript to Cytoplasm0.93
    5Formation of RNA Pol II elongation complex
    RNA Polymerase II Transcription0.60


    Find genes that share SuperPaths with CPSF3           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 BioSystems Pathway for CPSF3
        mRNA processing


    5 Reactome Pathways for CPSF3
        mRNA Splicing - Major Pathway
    Transport of Mature mRNA Derived from an Intronless Transcript
    mRNA 3'-end processing
    Processing of Intronless Pre-mRNAs
    Cleavage of Growing Transcript in the Termination Region


    1 Kegg Pathway  (Kegg details for CPSF3):
        mRNA surveillance pathway

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for CPSF3
    Interactions:

        GeneGlobe Interaction Network for CPSF3

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

    Selected Interacting proteins for CPSF3 (Q9UKF62, 3 ENSP000002381124) via UniProtKB, MINT, STRING, and/or I2D (see all 905)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CPSF2Q9P2I02, ENSP000002988754MINT-6802591 MINT-8198073 MINT-6802527 MINT-7947479 MINT-7945693 MINT-6802510 MINT-6802560 MINT-6802545 MINT-8089129 MINT-6802610 STRING: ENSP00000298875
    PAPOLAP510032, 3, ENSP000002162774MINT-8198073 MINT-8201295 I2D: score=1 STRING: ENSP00000216277
    CLP1Q929892, 3, ENSP000003047044MINT-7945693 I2D: score=1 STRING: ENSP00000304704
    CSTF2P332402, ENSP000003620634MINT-6802591 MINT-6802527 MINT-6802510 MINT-6802560 MINT-6802545 MINT-8089129 STRING: ENSP00000362063
    SYMPKQ927972, ENSP000002459344MINT-8198073 MINT-7947479 MINT-7945693 MINT-6802510 MINT-6802610 STRING: ENSP00000245934
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 11):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000398mRNA splicing, via spliceosome TAS--
    GO:0006366transcription from RNA polymerase II promoter TAS--
    GO:0006369termination of RNA polymerase II transcription TAS--
    GO:0006378mRNA polyadenylation TAS8929409
    GO:0006379mRNA cleavage TAS8929409

    Find genes that share ontologies with CPSF3           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 CPSF3

    2 Novoseek inferred chemical compound relationships for CPSF3 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    adenylate 69.5 38 8627681 (4), 15937220 (4), 1634525 (3), 14749727 (3) (see all 13)
    zinc 0 4 17128255 (3), 16115198 (1)



    Find genes that share compounds with CPSF3           About GenesLikeMe



    (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 CPSF3 gene: 
    NM_016207.3  

    Unigene Cluster for CPSF3:

    Cleavage and polyadenylation specific factor 3, 73kDa
    Hs.515972  [show with all ESTs]
    Unigene Representative Sequence: BC014106
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000238112(uc010ewx.1 uc002qzo.1) ENST00000475482 ENST00000460593(uc002qzp.1)
    ENST00000489629 ENST00000489403
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    hsa-miR-3919
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      QuantiTect SYBR Green Assays in human, mouse, rat CPSF3
      QuantiFast Probe-based Assays in human, mouse, rat CPSF3

    Additional mRNA sequence: 

    AF017269.1 AF171877.1 AK025440.1 AK223487.1 BC011654.2 BC014106.1 BC020211.1 BC030988.1 
    BC043432.2 EF036508.1 

    20 DOTS entries:

    DT.95176661  DT.100792408  DT.121022117  DT.216213  DT.102829033  DT.121022169  DT.121022192  DT.95237872 
    DT.438707  DT.100792410  DT.101961422  DT.121022105  DT.121022237  DT.75105096  DT.121022167  DT.121022223 
    DT.121022259  DT.91755084  DT.95176663  DT.99951700 

    Selected AceView cDNA sequences (see all 282):

    BU160924 BM721106 BM972592 CB122191 BE542820 AA400724 AA635764 BQ653832 
    BU166872 AA461551 BM480023 NM_016207 BM972151 AA471038 AU149256 BP338661 
    BF593455 BC014106 AF171877 BU542492 W95751 AW207544 BG187162 BQ921238 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for CPSF3 (see all 6)    About this scheme

    ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18a · 18b ^ 19 ^ 20
    SP1:        -     -     -     -     -                                               -                                                     -               
    SP2:                                -                                               -                                                     -               
    SP3:                          -                                                                                                                           
    SP4:                          -     -                                                                                                                     
    SP5:                                                                                                                                                      


    ECgene alternative splicing isoforms for CPSF3

    (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)
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    CPSF3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTCCAGGACA
    CPSF3 Expression
    About this image

    CPSF3 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CPSF3 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.515972
        Custom PCR Arrays for CPSF3
    Primer
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    (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)
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    This gene was present in the common ancestor of eukaryotes.

    Orthologs for CPSF3 gene from Selected species (see all 25)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cpsf31 , 5 cleavage and polyadenylation specificity factor 31, 5 89.04(n)1
    98.54(a)1
      12 (8.30 cM)5
    544511  NM_018813.31  NP_061283.21 
     212862975 
    chicken
    (Gallus gallus)
    Aves CPSF31 cleavage and polyadenylation specific factor 3, 73kDa 82.86(n)
    95.05(a)
      421929  XM_419942.4  XP_419942.4 
    lizard
    (Anolis carolinensis)
    Reptilia CPSF36
    cleavage and polyadenylation specific factor 3, 73...
    93(a)
    1 ↔ 1
    1(148474148-148492523)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.160762 Xenopus laevis transcribed sequence with strong similarity more 83.56(n)    BJ031316.1 
    zebrafish
    (Danio rerio)
    Actinopterygii wufc32f102 Transcribed sequence with strong similarity to protein more 80.58(n)    57048855 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG76983
    Cpsf731
    mRNA cleavage3
    Cleavage and polyadenylation specificity factor 731
    65(a)
    (best of 2)3
    62.58(n)1
    68.31(a)1
      91B83
    422401  NM_142481.21  NP_650738.11 
    worm
    (Caenorhabditis elegans)
    Secernentea Y67H2A.13
    cpsf-31
    cpsf-31 58(a)
    (best of 2)3
    61.52(n)1
    61.14(a)1
      IV(13274276-13283038)3
    1782851  NM_070152.51  NP_502553.21 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes YSH1(YLR277C)4
    YSH11
    Putative endoribonuclease, subunit of the mRNA cleavage more4
    YSH11
    56.13(n)1
    47.64(a)1
      12(699495-697156)4
    8509831, 4  NP_013379.11, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons CPSF73-I1 CPSF73-I 57.06(n)
    56.26(a)
      842393  NM_001036138.1  NP_001031215.1 
    rice
    (Oryza sativa)
    Liliopsida Os.90482 Oryza sativa (japonica cultivar-group) cDNA cloneJ more 71.45(n)    AK100660.1 


    ENSEMBL Gene Tree for CPSF3 (if available)
    TreeFam Gene Tree for CPSF3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CPSF3 gene
    CPSF3L2  
    1 SIMAP similar gene for CPSF3 using alignment to 4 protein entries:     CPSF3_HUMAN (see all proteins):
    CPSF3L

    Find genes that share paralogs with CPSF3           About GenesLikeMe



    (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)
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    Selected SNPs for CPSF3 (see all 989)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 2 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0358734
    A breast cancer sample4--see VAR_0358732 D N mis40--------
    rs589858991,2
    C--9451945(+) CGCAC-/CA/GC 
            
    ACACA
    1 -- int10--------
    rs1493792241,2
    --9565660(+) AGTATA/GCAAAT 1 -- int10--------
    rs1463516571,2
    --9565684(+) TTTTGG/TGGCTG 1 -- int10--------
    rs1397154621,2
    --9565712(+) GGGTGG/TTTGTG 1 -- int10--------
    rs1429817451,2
    --9565736(+) GGGCAG/TAGAGG 1 -- int10--------
    rs767601401,2
    C,F--9565853(+) GTTTCG/ATAACA 1 -- int11Minor allele frequency- A:0.08WA 118
    rs621188501,2
    --9565898(+) TCACAG/ATTTAC 1 -- int11Minor allele frequency- A:0.00NA 2
    rs1461513221,2
    --9565955(+) TAGAGG/TTATAC 1 -- int10--------
    rs1488105141,2
    C--9566004(+) CTCCCA/GAGAGA 1 -- int10--------

    HapMap Linkage Disequilibrium report for CPSF3 (9563697 - 9613230 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for CPSF3:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv2602CNV Loss18451855
    nsv514992CNV Complex21397061

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CPSF3
    DNA2.0 Custom Variant and Variant Library Synthesis for CPSF3

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 606029    OMIM disorders: --


    Find genes that share disorders with CPSF3           About GenesLikeMe

    2 Novoseek inferred disease relationships for CPSF3 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    equine infectious anemia 61.8 1 8756653 (1)
    immunodeficiency 9.79 2 8756653 (2)


    Export disorders for CPSF3 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 CPSF3 gene, integrated from 10 sources (see all 89):
    (articles sorted by number of sources associating them with CPSF3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Polyadenylation factor CPSF-73 is the pre-mRNA 3'-end-processing endonuclease. (PubMed id 17128255)1, 2, 9 Mandel C.R.... Tong L. (Nature 2006)
    2. Human Fip1 is a subunit of CPSF that binds to U-rich RNA elements and stimulates poly(A) polymerase. (PubMed id 14749727)1, 2, 9 Kaufmann I.... Keller W. (EMBO J. 2004)
    3. Conserved motifs in both CPSF73 and CPSF100 are required to assemble the active endonuclease for histone mRNA 3'-end maturation. (PubMed id 18688255)1, 2, 9 Kolev N.G.... Steitz J.A. (EMBO Rep. 2008)
    4. The poly A polymerase Star-PAP controls 3'-end cleavage by promoting CPSF interaction and specificity toward the pre-mRNA. (PubMed id 21102410)1, 2 Laishram R.S. and Anderson R.A. (EMBO J. 2010)
    5. 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. (Genome Res. 2004)
    6. Sequence similarity between the 73-kilodalton protein of mammalian CPSF and a subunit of yeast polyadenylation factor I. (PubMed id 8929409)1, 3 Jenny A....Keller W. (Science 1996)
    7. The 160-kD subunit of human cleavage-polyadenylation specificity factor coordinates pre-mRNA 3'-end formation. (PubMed id 7590244)1, 9 Murthy K.G. and Manley J.L. (Genes Dev. 1995)
    8. Characterization of cleavage and polyadenylation specificity factor and cloning of its 100-kilodalton subunit. (PubMed id 7969155)1, 9 Jenny A....Keller W. (Mol. Cell. Biol. 1994)
    9. The tumor suppressor Cdc73 functionally associates with CPSF and CstF 3' mRNA processing factors. (PubMed id 19136632)1, 9 Rozenblatt-Rosen O.... Meyerson M. (Proc. Natl. Acad. Sci. U.S.A. 2009)
    10. Transcription factor TFIID recruits factor CPSF for formation of 3' end of mRNA. (PubMed id 9311784)1, 9 Dantonel J.C....Tora L. (Nature 1997)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    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: 51692 HGNC: 2326 AceView: CPSF3 Ensembl:ENSG00000119203 euGenes: HUgn51692
    ECgene: CPSF3 Kegg: 51692 H-InvDB: CPSF3

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for CPSF3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for CPSF3 gene:
    Search GeneIP for patents involving CPSF3

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



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