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NCBP1 Gene

protein-coding   GIFtS: 60
GCID: GC09P100395

Nuclear Cap Binding Protein Subunit 1, 80kDa

(Previous names: nuclear cap binding protein subunit 1, 80kD)
(Previous symbol: NCBP)
Microbiology & Infectious Diseases Congress
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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
Nuclear Cap Binding Protein Subunit 1, 80kDa1 2     NCBP 80 KDa Subunit2 3
NCBP1 2 3 5     Nuclear Cap Binding Protein Subunit 1, 80kD1
80 KDa Nuclear Cap-Binding Protein2 3     Sto12
CBP802 3     Nuclear Cap-Binding Protein Subunit 12

External Ids:    HGNC: 76581   Entrez Gene: 46862   Ensembl: ENSG000001369377   OMIM: 6004695   UniProtKB: Q091613   

Export aliases for NCBP1 gene to outside databases

Previous GC identifers: GC09P091221 GC09P092139 GC09P093853 GC09P095775 GC09P097475 GC09P099435 GC09P069996


(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 NCBP1 Gene:
The product of this gene is a component of the nuclear cap-binding protein complex (CBC), which binds to the
monomethylated 5' cap of nascent pre-mRNA in the nucleoplasm. The encoded protein promotes high-affinity mRNA-cap
binding and associates with the CTD of RNA polymerase II. The CBC promotes pre-mRNA splicing, 3'-end processing,
RNA nuclear export, and nonsense-mediated mRNA decay. (provided by RefSeq, Jul 2008)

GeneCards Summary for NCBP1 Gene:
NCBP1 (nuclear cap binding protein subunit 1, 80kDa) is a protein-coding gene. Diseases associated with NCBP1 include asthenopia, and enamel erosion. GO annotations related to this gene include RNA binding and RNA cap binding.

UniProtKB/Swiss-Prot: NCBP1_HUMAN, Q09161
Function: Component of the cap-binding complex (CBC), which binds cotranscriptionally to the 5'-cap of pre-mRNAs
and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense-mediated mRNA
decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in
mRNA export from the nucleus via its interaction with ALYREF/THOC4/ALY, leading to the recruitment of the mRNA
export machinery to the 5'-end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The
CBC complex is also involved in mediating U snRNA and intronless mRNAs export from the nucleus. The CBC complex
is essential for a pioneer round of mRNA translation, before steady state translation when the CBC complex is
replaced by cytoplasmic cap-binding protein eIF4E. The pioneer round of mRNA translation mediated by the CBC
complex plays a central role in nonsense-mediated mRNA decay (NMD), NMD only taking place in mRNAs bound to the
CBC complex, but not on eIF4E-bound mRNAs. The CBC complex enhances NMD in mRNAs containing at least one
exon-junction complex (EJC) via its interaction with UPF1, promoting the interaction between UPF1 and UPF2. The
CBC complex is also involved in 'failsafe' NMD, which is independent of the EJC complex, while it does not
participate in Staufen-mediated mRNA decay (SMD). During cell proliferation, the CBC complex is also involved in
microRNAs (miRNAs) biogenesis via its interaction with SRRT/ARS2 and is required for miRNA-mediated RNA
interference. The CBC complex also acts as a negative regulator of PARN, thereby acting as an inhibitor of mRNA
deadenylation. In the CBC complex, NCBP1/CBP80 does not bind directly capped RNAs (m7GpppG-capped RNA) but is
required to stabilize the movement of the N-terminal loop of NCBP2/CBP20 and lock the CBC into a high affinity
cap-binding state with the cap structure




(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:
NC_000009.12  NT_008470.20  NC_018920.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the NCBP1 gene promoter:
         POU2F2 (Oct-2.1)   Oct-B1   oct-B3   oct-B2   POU2F2   POU2F2C   POU2F1   POU2F1a   POU2F2B   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidNCBP1 promoter sequence
   Search Chromatin IP Primers for NCBP1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat NCBP1


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

Entrez Gene cytogenetic band: 9q34.1   Ensembl cytogenetic band:  9q22.33   HGNC cytogenetic band: 9q34.1

NCBP1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NCBP1 gene location

GeneLoc information about chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09P100395:  view genomic region     (about GC identifiers)

Start:
100,395,705 bp from pter      End:
100,436,030 bp from pter
Size:
40,326 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, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: NCBP1_HUMAN, Q09161 (See protein sequence)
Recommended Name: Nuclear cap-binding protein subunit 1  
Size: 790 amino acids; 91839 Da
Subunit: Component of the nuclear cap-binding complex (CBC), a heterodimer composed of NCBP1/CBP80 and NCBP2/CBP20
that interacts with m7GpppG-capped RNA. Found in a U snRNA export complex containing RNUXA/PHAX, NCBP1/CBP80,
NCBP2/CBP20, RAN, XPO1 and m7G-capped RNA. Identified in a IGF2BP1-dependent mRNP granule complex containing
untranslated mRNAs. Interacts with RNUXA/PHAX, SRRT/ARS2, EIF4G2, IGF2BP1, HNRNPF, HNRNPH1, KIAA0427/CTIF, PARN,
DROSHA, UPF1 and ALYREF/THOC4. May interact with EIF4G1; the interaction is however controversial since it is
reported by PubMed:11340157, PubMed:15059963 and PubMed:15361857, but is not observed by PubMed:19648179
Sequence caution: Sequence=BAD92470.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Sequence=CAI12863.1; Type=Erroneous gene model prediction;
Selected PDB 3D structures from and Proteopedia for NCBP1 (see all 8):
1H2T (3D)        1H2U (3D)        1H2V (3D)        1H6K (3D)        1N52 (3D)        1N54 (3D)    
Secondary accessions: B2R718 Q59G76 Q5T1V0 Q5T7X2

Explore the universe of human proteins at neXtProt for NCBP1: NX_Q09161

Explore proteomics data for NCBP1 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys204, Lys323
  • Modification sites at PhosphoSitePlus

  • See NCBP1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_002477.1  
    ENSEMBL proteins: 
     ENSP00000364289   ENSP00000433007   ENSP00000364272  
    Reactome Protein details: Q09161

    NCBP1 Human Recombinant Protein Products:

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    Selected InterPro protein domains (see all 6):
     IPR003890 MIF4G-like_typ-3
     IPR016021 MIF4-like_typ_1/2/3
     IPR027159 CBP80
     IPR015172 MIF4G-like_typ-1
     IPR016024 ARM-type_fold

    Graphical View of Domain Structure for InterPro Entry Q09161

    ProtoNet protein and cluster: Q09161

    1 Blocks protein domain: IPB003890 Initiation factor eIF-4 gamma

    UniProtKB/Swiss-Prot: NCBP1_HUMAN, Q09161
    Similarity: Belongs to the NCBP1 family
    Similarity: Contains 1 MIF4G domain


    NCBP1 for domains           About GeneDecksing


    (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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
    About This Section

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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: NCBP1_HUMAN, Q09161
    Function: Component of the cap-binding complex (CBC), which binds cotranscriptionally to the 5'-cap of pre-mRNAs
    and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense-mediated mRNA
    decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in
    mRNA export from the nucleus via its interaction with ALYREF/THOC4/ALY, leading to the recruitment of the mRNA
    export machinery to the 5'-end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The
    CBC complex is also involved in mediating U snRNA and intronless mRNAs export from the nucleus. The CBC complex
    is essential for a pioneer round of mRNA translation, before steady state translation when the CBC complex is
    replaced by cytoplasmic cap-binding protein eIF4E. The pioneer round of mRNA translation mediated by the CBC
    complex plays a central role in nonsense-mediated mRNA decay (NMD), NMD only taking place in mRNAs bound to the
    CBC complex, but not on eIF4E-bound mRNAs. The CBC complex enhances NMD in mRNAs containing at least one
    exon-junction complex (EJC) via its interaction with UPF1, promoting the interaction between UPF1 and UPF2. The
    CBC complex is also involved in 'failsafe' NMD, which is independent of the EJC complex, while it does not
    participate in Staufen-mediated mRNA decay (SMD). During cell proliferation, the CBC complex is also involved in
    microRNAs (miRNAs) biogenesis via its interaction with SRRT/ARS2 and is required for miRNA-mediated RNA
    interference. The CBC complex also acts as a negative regulator of PARN, thereby acting as an inhibitor of mRNA
    deadenylation. In the CBC complex, NCBP1/CBP80 does not bind directly capped RNAs (m7GpppG-capped RNA) but is
    required to stabilize the movement of the N-terminal loop of NCBP2/CBP20 and lock the CBC into a high affinity
    cap-binding state with the cap structure

         Genatlas biochemistry entry for NCBP1:
    nuclear cap binding protein 1,component of the cap-binding protein complex in association with NCBP2 and other
    proteins,mediating premRNA splicing and export of U small nuclear RNAs to the cytoplasm

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000339RNA cap binding IEA--
    GO:0003723RNA binding TAS8069914
    GO:0005488binding ----
    GO:0005515protein binding IPI12374755
    GO:0044822poly(A) RNA binding IDA--
         
    NCBP1 for ontologies           About GeneDecksing


    Phenotypes:
         5 GenomeRNAi human phenotypes for NCBP1:
     Decreased NANOG protein expres  Decreased OCT4 protein express  Decreased POU5F1-GFP protein e  Decreased viability 
     Increased gamma-H2AX phosphory 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for NCBP1
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for NCBP1

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for NCBP1
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for NCBP1

    miRNA
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    miRTarBase miRNAs that target NCBP1:
    hsa-mir-192-5p (MIRT026295), hsa-let-7e-5p (MIRT051610), hsa-mir-26b-5p (MIRT028972), hsa-mir-215-5p (MIRT024362), hsa-let-7a-5p (MIRT052408)

    Block miRNA regulation of human, mouse, rat NCBP1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate NCBP1 (see all 28):
    hsa-miR-4288 hsa-miR-3146 hsa-miR-875-5p hsa-miR-632 hsa-miR-488 hsa-miR-641 hsa-miR-205* hsa-miR-23a
    SwitchGear 3'UTR luciferase reporter plasmidNCBP1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat NCBP1

    Gene Editing
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    Clone
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    OriGene ORF clones in mouse, rat for NCBP1
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    Browse Sino Biological Human cDNA Clones
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for NCBP1


    (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
    NCBP1_HUMAN, Q09161: Nucleus. Cytoplasm. Note=Localized in cytoplasmic mRNP granules containing untranslated
    mRNAs
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol4

    Gene Ontology (GO): Selected cellular component terms (see all 10):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005654nucleoplasm TAS--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm IDA--
    GO:0005739mitochondrion IDA--

    NCBP1 for ontologies           About GeneDecksing


    (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 NCBP1 About   (see all 13)  
    See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1mRNA Splicing - Major Pathway
    mRNA Splicing - Major Pathway0.78
    mRNA processing0.44
    Processing of Capped Intron-Containing Pre-mRNA0.78
    mRNA Splicing - Minor Pathway0.38
    mRNA Splicing0.78
    2Formation of RNA Pol II elongation complex
    mRNA Capping0.93
    Formation of RNA Pol II elongation complex0.75
    Formation of the Early Elongation Complex0.77
    Formation of HIV elongation complex in the absence of HIV Tat0.75
    Formation of the HIV-1 Early Elongation Complex0.77
    RNA Polymerase II Pre-transcription Events0.73
    Formation of HIV-1 elongation complex containing HIV-1 Tat0.77
    Transcription of the HIV genome0.71
    3RNA Polymerase II Transcription Termination
    RNA Polymerase II Transcription Termination0.80
    SLBP Dependent Processing of Replication-Dependent Histone Pre-mRNAs0.00
    mRNA 3-end processing0.80
    SLBP independent Processing of Histone Pre-mRNAs0.00
    Cleavage of Growing Transcript in the Termination Region0.80
    Processing of Intronless Pre-mRNAs0.00
    Processing of Capped Intronless Pre-mRNA0.52
    4Regulation of Glucokinase by Glucokinase Regulatory Protein
    Transport of the SLBP Dependant Mature mRNA0.92
    Transport of Mature mRNA Derived from an Intronless Transcript0.91
    Transport of Mature mRNAs Derived from Intronless Transcripts0.92
    snRNP Assembly0.54
    Transport of the SLBP independent Mature mRNA0.91
    Metabolism of non-coding RNA0.54
    5Influenza Viral RNA Transcription and Replication
    Nonsense Mediated Decay Independent of the Exon Junction Complex0.94
    Nonsense-Mediated Decay0.89
    Nonsense Mediated Decay Enhanced by the Exon Junction Complex0.89

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Cell Signaling Technology (CST) Pathway for NCBP1
        Translational Control

    1 BioSystems Pathway for NCBP1
        mRNA processing

    Selected Reactome Pathways for NCBP1 (see all 23)
        Transport of Mature mRNA derived from an Intron-Containing Transcript
    Formation of RNA Pol II elongation complex
    Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
    Transport of Mature mRNA Derived from an Intronless Transcript
    snRNP Assembly


    3 Kegg Pathways  (Kegg details for NCBP1):
        RNA transport
    mRNA surveillance pathway
    Spliceosome


    NCBP1 for pathways           About GeneDecksing

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for NCBP1
    Interactions:

        GeneGlobe Interaction Network for NCBP1

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

    Selected Interacting proteins for NCBP1 (Q091611, 2, 3 ENSP000003642894) via UniProtKB, MINT, STRING, and/or I2D (see all 487)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    NCBP2P522981, 2, 3, ENSP000003268064EBI-464743,EBI-464729 MINT-24994 MINT-8335957 I2D: score=7 STRING: ENSP00000326806
    EIF4G1Q046372, 3, ENSP000003168794MINT-4791425 I2D: score=4 STRING: ENSP00000316879
    SF3A2Q154282, 3, ENSP000002214944MINT-5205917 I2D: score=1 STRING: ENSP00000221494
    PARNO954531, 2, 3, ENSP000003879114EBI-464743,EBI-372832 MINT-7898703 MINT-7898728 I2D: score=1 STRING: ENSP00000387911
    HNRNPA1P096512, ENSP000003418264MINT-7234858 MINT-7234902 STRING: ENSP00000341826
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 23):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000184nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS--
    GO:0000387spliceosomal snRNP assembly TAS--
    GO:0000398mRNA splicing, via spliceosome TAS--
    GO:0006366transcription from RNA polymerase II promoter TAS--
    GO:0006368transcription elongation from RNA polymerase II promoter TAS--

    NCBP1 for ontologies           About GeneDecksing



    (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)
    About This Section

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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 NCBP1



    (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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
    About This Section

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    REFSEQ mRNAs for NCBP1 gene: 
    NM_002486.4  

    Unigene Cluster for NCBP1:

    Nuclear cap binding protein subunit 1, 80kDa
    Hs.595669  [show with all ESTs]
    Unigene Representative Sequence: NM_002486
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000375147(uc004axq.3) ENST00000478100 ENST00000375130 ENST00000491445

    Congresses - knowledge worth sharing:
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

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    Selected qRT-PCR Assays for microRNAs that regulate NCBP1 (see all 28):
    hsa-miR-4288 hsa-miR-3146 hsa-miR-875-5p hsa-miR-632 hsa-miR-488 hsa-miR-641 hsa-miR-205* hsa-miR-23a
    SwitchGear 3'UTR luciferase reporter plasmidNCBP1 3' UTR sequence
    Inhib. RNA
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    GenScript: all cDNA clones in your preferred vector: NCBP1 (NM_002486)
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat NCBP1
    Primer
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      QuantiTect SYBR Green Assays in human, mouse, rat NCBP1
      QuantiFast Probe-based Assays in human, mouse, rat NCBP1

    Additional mRNA sequence: 

    AB209233.1 AK312807.1 BC001450.2 D32002.1 X80030.1 

    20 DOTS entries:

    DT.95369662  DT.101961008  DT.86841494  DT.447205  DT.95369671  DT.102835149  DT.412404  DT.121158370 
    DT.65285061  DT.100693312  DT.121158243  DT.95336094  DT.121158266  DT.121158356  DT.121158364  DT.75140851 
    DT.95369664  DT.100685586  DT.100786207  DT.97785246 

    Selected AceView cDNA sequences (see all 200):

    X80030 BU176513 AI868113 AA482382 AW051577 AA255663 BQ709253 AU138969 
    BX462604 BX116966 AU135678 BC001450 BG179518 AI242582 BE464654 AA905723 
    Z45211 AA804812 BM460275 AU143246 AA886393 AA810545 AU130682 BQ009140 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for NCBP1    About this scheme

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

    ExUns: 20 ^ 21 ^ 22 ^ 23
    SP1:                        
    SP2:                        
    SP3:                        
    SP4:                        


    ECgene alternative splicing isoforms for NCBP1

    (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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    NCBP1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    NCBP1 Expression
    About this image


    NCBP1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 6) fully expand
     
     Brain (Nervous System)    fully expand to see all 4 entries
             Cerebral Cortex
     
     Ovary (Reproductive System)    fully expand to see all 2 entries
             Ovarian Mesenchymal Stroma Cells Ovary Interstitium
             Oviduct
     
     Trophoblast (Extraembryonic Tissues)
             Trophoblast Cells Trophoblast
     
     Pancreas (Endocrine System)
             Islets of Langerhans
     
     Testis (Reproductive System)
             Leydig Cells Testis Interstitium
    NCBP1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    NCBP1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.595669
        Custom PCR Arrays for NCBP1
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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 NCBP1 gene from Selected species (see all 21)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ncbp11 , 5 nuclear cap binding protein subunit 11, 5 89.54(n)1
    97.97(a)1
      4 (24.49 cM)5
    4337021  NM_001033201.31  NP_001028373.21 
     461386135 
    chicken
    (Gallus gallus)
    Aves NCBP11 nuclear cap binding protein subunit 1, 80kDa 80.89(n)
    90.63(a)
      427379  NM_001031440.1  NP_001026611.1 
    lizard
    (Anolis carolinensis)
    Reptilia NCBP16
    nuclear cap binding protein subunit 1, 80kDa
    76(a)
    1 ↔ 1
    GL343544.1(63494-103975)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.29842 Xenopus laevis transcribed sequence with moderate similarity more 74.69(n)    BU903252.1 
    zebrafish
    (Danio rerio)
    Actinopterygii NCBP1 (2 of 2)6
    NCBP1 (1 of 2)6
    nuclear cap binding protein subunit 1, 80kDa
    57(a)
    40(a)
    many → 1
    many → 1
    14(53351123-53353384) ENSDARG00000087007
    14(53293150-53294736) ENSDARG00000086907
    fruit fly
    (Drosophila melanogaster)
    Insecta Cbp801 , 3 mRNA splicing RNA cap binding3
    cap binding protein 801
    56(a)
    (best of 2)3
    56.84(n)1
    58.61(a)1
      4C113
    444091  NM_080011.21  NP_524750.21 
    worm
    (Caenorhabditis elegans)
    Secernentea F37E3.13
    ncbp-11
    CAP-binding protein3
    ncbp-11
    33(a)3
    48.13(n)1
    35.87(a)1
      I(6430171-6433618)3
    1723451  NM_059449.51  NP_491850.21 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes STO1(YMR125W)4 Large subunit of the nuclear mRNA cap-binding protein more   --   13(517539-520446) 855155  NP_013844.2 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons ABH11 ABH1 44.35(n)
    31.27(a)
      815840  NM_126934.3  NP_565356.1 
    rice
    (Oryza sativa)
    Liliopsida Os03g03472001 Os03g0347200 44.2(n)
    31.28(a)
      4332822  NM_001056632.1  NP_001050097.1 


    ENSEMBL Gene Tree for NCBP1 (if available)
    TreeFam Gene Tree for NCBP1 (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)
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    Selected SNPs for NCBP1 (see all 781)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 9 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1496558391,2
    --100398000(+) CGCCCA/GCCGAT 1 -- int10--------
    rs1878649081,2
    --100398086(+) AGAACG/TTGAGT 1 -- int10--------
    rs790016001,2
    C,F--100398109(+) TCTTTG/CTTGTT 1 -- int11Minor allele frequency- C:0.08EA 120
    rs1454694231,2
    --100398213(+) GAAAAA/GTAACT 1 -- int10--------
    rs27733491,2
    C,F,H--100398254(+) CTTTCT/CTGGAG 1 -- int18Minor allele frequency- C:0.13EA NS NA WA 750
    rs1495761201,2
    C--100398336(+) TAAAT-/AAGAC 
            
    AAGTA
    1 -- int10--------
    rs1998698821,2
    --100398473(+) ACGAT-/CCGCTG 1 -- int10--------
    rs583522351,2
    C--100398474(+) CGATCA/-GCTGG 1 -- int11Minor allele frequency- -:0.00CSA 2
    rs718839481,2
    C--100398475(+) GATCG-/ACTGGA 1 -- int10--------
    rs1160012621,2
    F--100398746(+) ATAGAA/GTGTAT 1 -- int11Minor allele frequency- G:0.36WA 118

    HapMap Linkage Disequilibrium report for NCBP1 (100395705 - 100436030 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for NCBP1:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv893610CNV Gain21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing NCBP1
    DNA2.0 Custom Variant and Variant Library Synthesis for NCBP1

    (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.)
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    OMIM gene information: 600469    OMIM disorders: --

    8 diseases for NCBP1:    
    About MalaCards
    asthenopia    enamel erosion    xeroderma pigmentosum    kaposi's sarcoma
    hiv-1    sarcoma    influenza    malaria

    1 disease from the University of Copenhagen DISEASES database for NCBP1:
    Asthenopia

    NCBP1 for disorders           About GeneDecksing


    Export disorders for NCBP1 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 NCBP1 gene, integrated from 10 sources (see all 90):
    (articles sorted by number of sources associating them with NCBP1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Cloning of a complementary DNA encoding an 80 kilodalton nuclear cap binding protein. (PubMed id 7937105)1, 2, 3, 9 Kataoka N.... Shimura Y. (Nucleic Acids Res. 1994)
    2. Evidence for a pioneer round of mRNA translation: mRNAs subject to nonsense-mediated decay in mammalian cells are bound by CBP80 and CBP20. (PubMed id 11551508)1, 2, 9 Ishigaki Y.... Maquat L.E. (Cell 2001)
    3. Interaction between the human nuclear cap-binding protein complex and hnRNP F. (PubMed id 9111328)1, 2, 9 Gamberi C.... Mattaj I.W. (Mol. Cell. Biol. 1997)
    4. Crystal structure of the human nuclear cap binding complex. (PubMed id 11545740)1, 2, 9 Mazza C.... Cusack S. (Mol. Cell 2001)
    5. Cdc42 stimulates RNA splicing via the S6 kinase and a novel S6 kinase target, the nuclear cap-binding complex. (PubMed id 10973943)1, 2, 9 Wilson K.F.... Cerione R.A. (J. Biol. Chem. 2000)
    6. A cap-binding protein complex mediating U snRNA export. (PubMed id 7651522)1, 2, 9 Izaurralde E....Mattaj A.W. (Nature 1995)
    7. A nuclear cap binding protein complex involved in pre-mRNA splicing. (PubMed id 8069914)1, 2, 9 Izaurralde E....Mattaj I.W. (Cell 1994)
    8. A new MIF4G domain-containing protein, CTIF, directs nuclear cap- binding protein CBP80/20-dependent translation. (PubMed id 19648179)1, 2 Kim K.M....Kim Y.K. (Genes Dev. 2009)
    9. Lysine acetylation targets protein complexes and co-regulates major cellular functions. (PubMed id 19608861)1, 2 Choudhary C.... Mann M. (Science 2009)
    10. SKAR links pre-mRNA splicing to mTOR/S6K1-mediated enhanced translation efficiency of spliced mRNAs. (PubMed id 18423201)1, 2 Ma X.M.... Blenis J. (Cell 2008)

    (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: 4686 HGNC: 7658 AceView: NCBP1 Ensembl:ENSG00000136937 euGenes: HUgn4686
    ECgene: NCBP1 Kegg: 4686 H-InvDB: NCBP1

    (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 NCBP1 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 NCBP1 gene:
    Search GeneIP for patents involving NCBP1

    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, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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