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Aliases & Descriptions for NCBP1
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section
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Aliases CBP80 1 , 2 , 3 MGC2087 2 NCBP 2 , 3 OTTHUMP00000021753 2
Descriptions 80 kDa nuclear cap-binding protein 3 NCBP 80 kDa subunit 3 nuclear cap binding protein subunit 1, 80kD 1 nuclear cap binding protein subunit 1, 80kDa 2
Search outside databases for aliases for NCBP1 genePrevious GC identifers: GC09P091221 GC09P092139 GC09P093853 GC09P095775 GC09P097475
Summaries for NCBP1 (According to Entrez Gene ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
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EntrezGene summary for NCBP1 : The product of this gene is a component of the nuclear cap-binding protein complex (CBC), whichbinds to the monomethylated 5' cap of nascent pre-mRNA in the nucleoplasm. The encodedprotein 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, andnonsense-mediated mRNA decay. [provided by RefSeq] UniProtKB/Swiss-Prot: NCBP1_HUMAN, Q09161 Function : Involved in mediating U snRNA export from the nucleus. Binds to 5' capped mRNA
Genomic Location for NCBP1
(According to
GeneLoc and/or
HGNC , and/or
Entrez Gene (NCBI build 36) ,
and/or miRBase ,
Genomic Views according to
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Transcription factor binding sites according to
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Genomic View : UCSC Golden Path with GeneCards custom track Transcription factor binding sites upstream to the NCBP1 gene 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) GeneLoc gene densities for chromosome 9 GeneLoc Exon Structure
GeneLoc location for GC09P099435:
(about GC identifiers )
Start:
99,435,526 bp from pter
End:
99,475,851 bp from pter
Size:
40,326 bases
Orientation:
plus strand
RefSeq DNA sequence: NC_000009.10 NT_008470.18 Proteins for NCBP1
(According to
1 UniProtKB ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Enzo Life Sciences ,
Abnova ,
OriGene and/or,
Abcam ,
Biochemical Assays by
Invitrogen ,
Millipore ,
R&D Systems ,
Cell Signaling Technology , and/or
Enzo Life Sciences ,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene ,
Antibodies by Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Cell Signaling Technology ,
Abcam ,
Abnova , and/or
Novus Biologicals )
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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 : Found in a U snRNA export complex with RNUXA/PHAX, CBP20, CBP80, RAN, XPO1 and m7G-cappedRNA. Interaction with RNUXA/PHAX (By similarity). Heterodimer with NCBP2. Is part of the exonjunction complex (EJC) containing NCBP1, NCBP2, RNPS1, RBM8A, SRRM1, NXF1, UPF3B, UPF2, THOC4and/or REFBP2
Subcellular location : Nucleus
PDB structures from and Proteopedia : 1H2T (3D)
 1H2U (3D)
 1H2V (3D)
 1H6K (3D)
 1N52 (3D)
 1N54 (3D)
 
Secondary accessions : Q59G76 Q5T1V0
Post-translational modifications:
View phosphorylation sites using PhosphoSite 2
REFSEQ proteins: NP_002477.1 ENSEMBL proteins: ENSP00000364272 ENSP00000364274 ENSP00000364289 Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 4 Gene Ontology (GO) cellular component terms (links to tree view) :
About this table Antibodies for NCBP1: Assays for NCBP1:
Protein
Domains/ Families for NCBP1(According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
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Graphical View of Domain Structure for InterPro Entry Q09161 ProtoNet protein and cluster: Q09161
1 Blocks protein family : IPB003890 Initiation factor eIF-4 gamma UniProtKB/Swiss-Prot: NCBP1_HUMAN, Q09161 Similarity : Belongs to the NCBP1 familySimilarity : Contains 1 MIF4G domain
Gene Function for NCBP1
(According to MGI Jun 06 2009, UniProtKB ,
IUBMB ,and/or Genatlas ,
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SYBR primers from OriGene ,
Cell-based Assays from Millipore ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_002486 Applied Biosystems Silencer ® siRNAs for NCBP1 Sigma-Aldrich siRNA for NCBP1 Sigma-Aldrich shRNA for NCBP1 Explore Sigma-Aldrich super-pooled esiRNAs               OriGene GFP tagged cDNA clone in CMV expression vector: NM_002486                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_002486                                  untagged cDNA clone in CMV expression vector: NM_002486  Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_002486 UniProtKB/Swiss-Prot: NCBP1_HUMAN, Q09161 Function : Involved in mediating U snRNA export from the nucleus. Binds to 5' capped mRNA
Genatlas biochemistry entry for NCBP1 :nuclear cap binding protein 1,component of the cap-binding protein complex in association withNCBP2 and other proteins,mediating premRNA splicing and export of U small nuclear RNAs to thecytoplasm 2 Gene Ontology (GO) molecular function terms (links to tree view) :
About this table
Pathways & Interactions for NCBP1
(Pathways according to Invitrogen
(maps by GeneGo ),
Millipore ,
Cell Signaling Technology ,
Sigma-Aldrich ,
KEGG
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
Proteins Network according to
SABiosciences ,
Interactions according to 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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Gene Network CentralTM Interacting Genes and Proteins Network for NCBP1 5/162 Interacting proteins for NCBP1 (ENSP00000364289 3 Q09161 1 , 2 ) via UniProtKB, MINT, and/or STRING (see all 162
)About this table 5/7 Gene Ontology (GO) biological process terms (links to tree view) (see all 7
):
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Drugs & Compounds for NCBP1 (Chemical Compounds according to UniProtKB , Enzo Life Sciences ,
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Browse Tocris compounds for NCBP1
Transcripts for NCBP1(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank , RefSeq according to Entrez Gene ,
DOTS (version 10), and/or
AceView ,
non coding RNAs according to
RNAdb ,
ESTs according to GeneTide ,
exon structure from GeneLoc ,
alternative splicing isoforms according to ASD and/or
ECgene ,
RNAi Products from Invitrogen ,
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              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_002486 Sigma-Aldrich siRNA for NCBP1 Sigma-Aldrich shRNA for NCBP1 Explore Sigma-Aldrich super-pooled esiRNAs
Applied Biosystems Silencer ® siRNAs: NM_002486
REFSEQ mRNAs for NCBP1 gene: NM_002486.4
Applied Biosystems TaqMan ® Gene Expression Assays: NM_002486
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_002486                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_002486                                  untagged cDNA clone in CMV expression vector: NM_002486  
Additional cDNA 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.100693312 DT.121158370 DT.65285061 DT.121158243 DT.95336094 DT.121158266 DT.121158356 DT.121158364 DT.75140851 DT.95369664 DT.100685586 DT.100786207 DT.97785246
24/200 AceView cDNA sequences (see all 200
):AA468545 AU138969 AA076305 BX365349 BU176513 BU949532 AI868113 BX116966 BU624686 BG392612 AI081311 BC001450 AU135678 AA804812 BX099181 CB121904 AA905723 AA912932 BQ709253 AA262509 BM714312 BM802780 BQ063845 AA255663
highest scoring ESTs for NCBP1 :D32002 AI391649 AI799881 AI926237 AL522497 AL562000 AU149980 BC001450 BE087734 BE781615
Unigene Cluster for NCBP1: Nuclear cap binding protein subunit 1, 80kDa Hs.595669 [show with all ESTs ] Unigene Representative Sequence: NM_002486 GeneLoc Exon Structure 4 Alternative Splicing Database (ASD) splice patterns (SP) for NCBP1 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 :        
About this scheme ECgene alternative splicing isoforms for NCBP1 3 Ensembl transcripts including schematic representations : ENST00000375130
ENST00000375132
ENST00000375147
Expression for NCBP1
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
Sets of similar genes according to GeneDecks ,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP ,
plus additional links to
SOURCE , and/or
GNF
BioGPS , and/or
EXPOLDB , and/or
UniProtKB ,
Expression Assays from
Applied Biosystems
)
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NCBP1 expression in normal and diseased human tissues Applied Biosystems TaqMan ® Gene Expression Assays for NCBP1 1 / 2 / 3
5 probe-sets matching NCBP1 gene Data from
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: AAGAGAGGACSOURCE GeneReport for Unigene cluster: Hs.595669 Expression variation in blood from EXPOLDB for NCBP1
Orthologs for NCBP1
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Jun 06 2009,
with possible further links to
Flybase
and/or
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Gene Trees according to Ensembl )
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Orthologs for NCBP1 gene from 5/15 species (see all 15
)
About this table Species with no ortholog for NCBP1 ENSEMBL Gene Tree for NCBP1 Paralogs for NCBP1 (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section
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SNPs/Variants for NCBP1 (According to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Genotyping Reagents from
Applied Biosystems )
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HapMap Linkage Disequilibrium images for NCBP1 (up to first 250kb)
Disorders & Mutations for NCBP1
(in which this Gene is Involved, According to
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Blood group antigen gene mutations by BGMUT ,
HGMD, GAD ,
HuGE Navigator ,
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OMIM: 600469
Medical News for NCBP1 (Possibly Related Articles in
Doctor's Guide )
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Publications for NCBP1 (in
PubMed .
Associations of this gene to articles via
1 Novoseek ,
2 HGNC ,
3 Entrez Gene ,
4 UniProtKB/Swiss-Prot ,
5 UniProtKB/TrEMBL ,
6 GAD , and/or
7 PharmGKB )
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10/46 PubMed articles for NCBP1 gene (see all 46
): Cloning of a complementary DNA encoding an 80 kilodalton nuclear cap binding protein. (PubMed id 7937105) 1, 2, 3, 4 Kataoka N.... Shimura Y. (1994) A nuclear cap binding protein complex involved in pre-mRNA splicing. (PubMed id 8069914) 1, 3, 4 Izaurralde E....Mattaj I.W. (1994) Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983) 3, 4 Olsen J.V....Mann M. (2006) DNA sequence and analysis of human chromosome 9. (PubMed id 15164053) 3, 4 Humphray S.J.... Dunham I. (2004) The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334) 3, 4 Gerhard D.S....Malek J. (2004) The exon junction complex is detected on CBP80-bound but not eIF4E- bound mRNA in mammalian cells: dynamics of mRNP remodeling. (PubMed id 12093754) 3, 4 Lejeune F.... Maquat L.E. (2002) Large-scale induced fit recognition of an m(7)GpppG cap analogue by the human nuclear cap-binding complex. (PubMed id 12374755) 3, 4 Mazza C.... Cusack S. (2002) Nuclear cap binding protein maps close to the xeroderma pigmentosum complementation group A (XPA) locus in human and mouse. (PubMed id 8812508) 2, 3 Chadwick B.P....Frischauf A.M. (1996) eIF4G and CBP80 share a common origin and similar domain organization: implications for the structure and function of eIF4G. (PubMed id 16156639) 1, 3 Marintchev A. and Wagner G. (2005) Interaction between the human nuclear cap-binding protein complex and hnRNP F. (PubMed id 9111328) 1, 3 Gamberi C....Mattaj I.W. (1997)
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Genome Databases showing NCBP1
(According to
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miRBase ,
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and/or
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Other Databases showing NCBP1
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Specialized Databases showing NCBP1 (According to ATLAS , HORDE , IMGT , MTDB, LEIDEN , UniProtKB/Swiss-Prot , and/or UniProtKB/TrEMBL ,Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot )About This Section
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Signaling Technology , Abcam , Novus Biologicals ,Sigma-Aldrich , R&D Systems , Millipore , Abnova , and/or Invitrogen , Clones available from OriGene ,and/or Invitrogen , Drugs and/or compounds by Sigma-Aldrich , Enzo Life Sciences , and/or Tocris Bioscience )About This Section
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