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NXF1 Gene

protein-coding   GIFtS: 63
GCID: GC11M062559

Nuclear RNA Export Factor 1

  See NXF1-related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Nuclear RNA Export Factor 11 2     Tip-Associating Protein2 3
TAP2 3 5     MRNA Export Factor TAP2 3
Tip Associating Protein1 2     MEX672 5
Tip-Associated Protein2 3     

External Ids:    HGNC: 80711   Entrez Gene: 104822   Ensembl: ENSG000001622317   OMIM: 6026475   UniProtKB: Q9UBU93   

Export aliases for NXF1 gene to outside databases

Previous GC identifers: GC11M065072 GC11M064135 GC11M062810 GC11M062335 GC11M062316 GC11M058888


(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 NXF1 Gene:
This gene is one member of a family of nuclear RNA export factor genes. Common domain features of this family are
a noncanonical RNP-type RNA-binding domain (RBD), 4 leucine-rich repeats (LRRs), a nuclear transport factor 2
(NTF2)-like domain that allows heterodimerization with NTF2-related export protein-1 (NXT1), and a
ubiquitin-associated domain that mediates interactions with nucleoporins. The LRRs and NTF2-like domains are
required for export activity. Alternative splicing seems to be a common mechanism in this gene family. The
encoded protein of this gene shuttles between the nucleus and the cytoplasm and binds in vivo to poly(A)+ RNA. It
is the vertebrate homologue of the yeast protein Mex67p. The encoded protein overcomes the mRNA export block
caused by the presence of saturating amounts of CTE (constitutive transport element) RNA of type D retroviruses.
Alternative splicing results in multiple transcript variants. (provided by RefSeq, Jul 2008)

GeneCards Summary for NXF1 Gene:
NXF1 (nuclear RNA export factor 1) is a protein-coding gene. Diseases associated with NXF1 include branchiootorenal syndrome, and genital herpes. GO annotations related to this gene include nucleocytoplasmic transporter activity and nucleotide binding. An important paralog of this gene is NXF3.

UniProtKB/Swiss-Prot: NXF1_HUMAN, Q9UBU9
Function: Involved in the nuclear export of mRNA species bearing retroviral constitutive transport elements (CTE)
and in the export of mRNA from the nucleus to the cytoplasm (TAP/NFX1 pathway). The NXF1-NXT1 heterodimer is
involved in the export of HSP70 mRNA in conjunction with ALYREF/THOC4 and THOC5 components of the TREX complex.
ALYREF/THOC4-bound mRNA is thought to be transferred to the NXF1-NXT1 heterodimer for export

Gene Wiki entry for NXF1 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_000011.9  NT_167190.2  NC_018922.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the NXF1 gene promoter:
         AML1a   Bach2   NRSF form 1   HNF-1   ARP-1   NRSF form 2   GATA-2   HNF-1A   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidNXF1 promoter sequence
   Search Chromatin IP Primers for NXF1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat NXF1


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

Entrez Gene cytogenetic band: 11q12-q13   Ensembl cytogenetic band:  11q12.3   HGNC cytogenetic band: 11q12-q13

NXF1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NXF1 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11M062559:  view genomic region     (about GC identifiers)

Start:
62,559,595 bp from pter      End:
62,573,774 bp from pter
Size:
14,180 bases      Orientation:
minus 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: NXF1_HUMAN, Q9UBU9 (See protein sequence)
Recommended Name: Nuclear RNA export factor 1  
Size: 619 amino acids; 70182 Da
Subunit: Heterodimer with NXT1. Interacts (via NTF2 domain) with NXT1. The formation of NXF1-NXT1 heterodimers is
required for the NXF1-mediated nuclear mRNA export. Interacts with NXT2, E1B-AP5, RAE1, ALYREF/THOC4, DDX39B,
FYTTD1/UIF, EIF4A3, NUPL2 and with several nucleoporins. Interacts with THOC5 and CHTOP; in a mutually exclusive
manner. Associates with the exon junction complex (EJC) and with the transcription/export (TREX) complex. Found
in a mRNA complex with RENT3A and RENT3B. Interacts with Saimiriine herpesvirus 2 TIP protein. Interacts with
human herpes virus 1 (HHV-1) ICP27 protein; this interaction allows efficient export of HHV-1 early and late
transcripts
Selected PDB 3D structures from and Proteopedia for NXF1 (see all 12):
1FO1 (3D)        1FT8 (3D)        1GO5 (3D)        1JKG (3D)        1JN5 (3D)        1KOH (3D)    
Secondary accessions: B4E269 Q99799 Q9UQL2
Alternative splicing: 2 isoforms:  Q9UBU9-1   Q9UBU9-2   

Explore the universe of human proteins at neXtProt for NXF1: NX_Q9UBU9

Explore proteomics data for NXF1 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys117, Lys173, Lys230
  • Modification sites at PhosphoSitePlus

  • See NXF1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001074960.1  NP_006353.2  

    ENSEMBL proteins: 
     ENSP00000453885   ENSP00000436679   ENSP00000434301   ENSP00000435742   ENSP00000477375  
     ENSP00000431381   ENSP00000432530   ENSP00000437296   ENSP00000294172   ENSP00000408864  
    Reactome Protein details: Q9UBU9

    NXF1 Human Recombinant Protein Products:

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    OriGene Protein Over-expression Lysate for NXF1
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    Novus Biologicals NXF1 Proteins
    Novus Biologicals NXF1 Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
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    Cloud-Clone Corp. Proteins for NXF1

     
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    NXF1 Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of NXF1
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    NXF1 Assay Products:

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    Cloud-Clone Corp. ELISAs for NXF1
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    Search eBioscience for ELISAs for NXF1 


    (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 8):
     IPR002075 NTF2
     IPR015245 Tap_RNA-bd
     IPR005637 TAP_C_dom
     IPR001611 Leu-rich_rpt
     IPR012677 Nucleotide-bd_a/b_plait

    Graphical View of Domain Structure for InterPro Entry Q9UBU9

    ProtoNet protein and cluster: Q9UBU9

    4 Blocks protein domains:
    IPB001611 Leucine-rich repeat signature
    IPB002075 Nuclear transport factor 2 (NTF2)
    IPB003603 Leucine-rich-associated
    IPB005637 TAP C-terminal domain


    UniProtKB/Swiss-Prot: NXF1_HUMAN, Q9UBU9
    Domain: The minimal CTE binding domain consists of an RNP-type RNA binding domain (RBD) and leucine-rich repeats
    Domain: The nucleoporin binding domain consists of a NTF2 domain (also called NTF2-like domain) and a TAP-C domain
    (also called UBA-like domain). It has 2 nucleoporin-FG-repeats binding sites (one in the NTF2 and the other in
    the TAP-C domain) which contribute to nucleoporin association and act synergistically to export cellular mRNAs
    Domain: The NTF2 domain is functional only in the presence of NXT1 and is essential for the export of mRNA from
    the nucleus. It inhibits RNA binding activity through an intramolecular interaction with the N-terminal RNA
    binding domain (RBD); the inhibition is removed by an association with the TREX complex, specifically involving
    ALYREF/THOC4 and THOC5
    Domain: The TAP-C domain mediates direct interactions with nucleoporin-FG-repeats and is necessary and sufficient
    for localization of NXF1 to the nuclear rim. The conserved loop 594-NWD-596 of the TAP-C domain has a critical
    role in the interaction with nucleoporins
    Domain: The leucine-rich repeats are essential for the export of mRNA from the nucleus
    Domain: The RNA-binding domain is a non-canonical RNP-type domain
    Similarity: Belongs to the NXF family
    Similarity: Contains 4 LRR (leucine-rich) repeats
    Similarity: Contains 1 NTF2 domain
    Similarity: Contains 1 RRM (RNA recognition motif) domain
    Similarity: Contains 1 TAP-C domain


    Find genes that share domains with NXF1           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: NXF1_HUMAN, Q9UBU9
    Function: Involved in the nuclear export of mRNA species bearing retroviral constitutive transport elements (CTE)
    and in the export of mRNA from the nucleus to the cytoplasm (TAP/NFX1 pathway). The NXF1-NXT1 heterodimer is
    involved in the export of HSP70 mRNA in conjunction with ALYREF/THOC4 and THOC5 components of the TREX complex.
    ALYREF/THOC4-bound mRNA is thought to be transferred to the NXF1-NXT1 heterodimer for export

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003723RNA binding ----
    GO:0003729mRNA binding IEA--
    GO:0005487nucleocytoplasmic transporter activity IEA--
    GO:0005515protein binding IPI10924507
         
    Find genes that share ontologies with NXF1           About GenesLikeMe


    Phenotypes:
         14 GenomeRNAi human phenotypes for NXF1:
     Decreased NANOG protein expres  Decreased OCT4 protein express  Decreased POU5F1-GFP protein e  Decreased cell number, increas 
     Decreased influenza A H1N1 (A/  Decreased influenza A H1N1 (A/  Decreased influenza A virus in  Decreased influenza A/WSN/33 r 
     Decreased viability  Decreased viability of wild-ty  G0/1 arrest  Increased gamma-H2AX phosphory 
     Increased number of mitotic ce  Synthetic lethal with Ras 

         7 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Nxf1):
     behavior/neurological  hearing/vestibular/ear  integument  mortality/aging  nervous system 
     pigmentation  renal/urinary system 

    Find genes that share phenotypes with NXF1           About GenesLikeMe

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for NXF1
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for NXF1

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for NXF1
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for NXF1

    miRNA
    Products:
        
    miRTarBase miRNAs that target NXF1:
    hsa-mir-615-3p (MIRT039654)

    Block miRNA regulation of human, mouse, rat NXF1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate NXF1 (see all 44):
    hsa-miR-124* hsa-miR-330-5p hsa-miR-1224-3p hsa-miR-218-1* hsa-miR-128 hsa-miR-486-3p hsa-miR-550a* hsa-miR-4267
    SwitchGear 3'UTR luciferase reporter plasmidNXF1 3' UTR sequence
    Inhib. RNA
    Products:
        
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    Predesigned siRNA for gene silencing in human, mouse, rat NXF1

    Gene Editing
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    Clone
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    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): NXF1 (NM_001081491)
    Sino Biological Human cDNA Clone for NXF1
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    Cell Line
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    Flow Cytometry
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    eBioscience FlowRNA Probe Sets ( VA1-12070) for NXF1 


    (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
    NXF1_HUMAN, Q9UBU9: Nucleus, nucleoplasm. Nucleus speckle. Cytoplasm. Note=Localized predominantly in the
    nucleoplasm and at both the nucleoplasmic and cytoplasmic faces of the nuclear pore complex. Shuttles between the
    nucleus and the cytoplasm. Travels to the cytoplasm as part of the exon junction complex (EJC) bound to mRNA. The
    association with the TREX complex seems to occur in regions surrounding nuclear speckles known as perispeckles
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol4

    Gene Ontology (GO): Selected cellular component terms (see all 9):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000346colocalizes with transcription export complex IDA--
    GO:0005622intracellular ----
    GO:0005634nucleus ----
    GO:0005643nuclear pore IEA--
    GO:0005654nucleoplasm TAS--

    Find genes that share ontologies with NXF1           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 NXF1 About   (see all 9)  
    See pathways by source

    SuperPathContained pathways About
    1mRNA Splicing - Major Pathway
    Processing of Capped Intron-Containing Pre-mRNA0.78
    mRNA processing0.44
    2Regulation of Glucokinase by Glucokinase Regulatory Protein
    Transport of the SLBP Dependant Mature mRNA0.92
    Transport of the SLBP independent Mature mRNA0.91
    Transport of Mature mRNAs Derived from Intronless Transcripts0.92
    Transport of Mature mRNA Derived from an Intronless Transcript0.91
    3Transport of Mature Transcript to Cytoplasm
    Transport of Mature mRNA derived from an Intron-Containing Transcript0.93
    Transport of Mature Transcript to Cytoplasm0.93
    4Influenza A
    Influenza A0.34
    Herpes simplex infection0.33
    5Gene Expression
    Gene Expression0.40


    Find genes that share SuperPaths with NXF1           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Cell Signaling Technology (CST) Pathway for NXF1
        Translational Control

    1 BioSystems Pathway for NXF1
        mRNA processing


    4 Reactome Pathways for NXF1
        Transport of the SLBP Dependant Mature mRNA
    Transport of Mature mRNA derived from an Intron-Containing Transcript
    Transport of Mature mRNA Derived from an Intronless Transcript
    Transport of the SLBP independent Mature mRNA


    5 Kegg Pathways  (Kegg details for NXF1):
        Ribosome biogenesis in eukaryotes
    RNA transport
    mRNA surveillance pathway
    Influenza A
    Herpes simplex infection

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for NXF1
    Interactions:

        GeneGlobe Interaction Network for NXF1

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

    Selected Interacting proteins for NXF1 (Q9UBU91, 2, 3 ENSP000002941724) via UniProtKB, MINT, STRING, and/or I2D (see all 237)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DHX9Q082111, 2, 3, ENSP000003565204EBI-398874,EBI-352022 MINT-16997 MINT-16996 I2D: score=5 STRING: ENSP00000356520
    RAE1P784062, 3, ENSP000003602864MINT-14382 MINT-14383 I2D: score=3 STRING: ENSP00000360286
    NUP214P356582, 3, ENSP000003524004MINT-15076 I2D: score=3 STRING: ENSP00000352400
    SRSF1Q079551, 3, ENSP000002589624EBI-398874,EBI-398920 I2D: score=3 STRING: ENSP00000258962
    SRSF3P841031, 2, 3, ENSP000003628204EBI-398874,EBI-372557 MINT-3379978 MINT-3380604 MINT-3379948 MINT-3380578 I2D: score=2 STRING: ENSP00000362820
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006405RNA export from nucleus ----
    GO:0006406mRNA export from nucleus TAS--
    GO:0006810transport ----
    GO:0010467gene expression TAS--
    GO:0016032viral process IEA--

    Find genes that share ontologies with NXF1           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 NXF1

    3 Novoseek inferred chemical compound relationships for NXF1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    arginine 12.6 6 20129943 (2), 17668007 (1), 11358864 (1)
    serine 7.58 1 15210956 (1)
    atp 0 3 9408957 (1), 12473688 (1)



    Find genes that share compounds with NXF1           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 NXF1 gene (2 alternative transcripts): 
    NM_001081491.1  NM_006362.4  

    Unigene Cluster for NXF1:

    Nuclear RNA export factor 1
    Hs.523739  [show with all ESTs]
    Unigene Representative Sequence: NM_001081491
    18 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000531709(uc001nvg.1 uc010rmh.1) ENST00000532297 ENST00000527902
    ENST00000533048 ENST00000533499 ENST00000527497 ENST00000530875(uc009yog.1)
    ENST00000533440 ENST00000531872 ENST00000531579 ENST00000526163 ENST00000531131
    ENST00000533671 ENST00000525576 ENST00000531474 ENST00000527064 ENST00000294172(uc001nvf.1)
    ENST00000439713
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate NXF1 (see all 44):
    hsa-miR-124* hsa-miR-330-5p hsa-miR-1224-3p hsa-miR-218-1* hsa-miR-128 hsa-miR-486-3p hsa-miR-550a* hsa-miR-4267
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    eBioscience FlowRNA Probe Sets ( VA1-12070) for NXF1 

    Additional mRNA sequence: 

    AB209915.1 AF112880.1 AF126246.1 AJ132712.1 AK027192.1 AK304082.1 AK304137.1 AK304743.1 
    AK307961.1 AK307998.1 BC004904.2 BC017421.1 BC028041.1 CR749674.1 U80073.1 Z36505.1 

    Selected DOTS entries (see all 30):

    DT.100643758  DT.100648210  DT.99934843  DT.120700981  DT.101983229  DT.40269943  DT.40286116  DT.100648211 
    DT.120700997  DT.91741762  DT.120700962  DT.97795449  DT.100648213  DT.120700941  DT.120700951  DT.120701041 
    DT.121430873  DT.40132239  DT.91667990  DT.95092191  DT.95092203  DT.120700933  DT.120700998  DT.120701010 

    Selected AceView cDNA sequences (see all 617):

    CD367415 AA479748 AI268369 BI063538 CA428845 BQ431910 AA127687 AW168051 
    BE891374 AU124931 AI343383 BM875653 AA452835 BM151310 AW665636 BI767432 
    AJ278543 BC028041 BM770258 BQ670320 BI062712 CR597811 AI419950 CB215169 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for NXF1 (see all 12)    About this scheme

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

    ExUns: 16 ^ 17 ^ 18a · 18b ^ 19 ^ 20 ^ 21a · 21b ^ 22 ^ 23 ^ 24
    SP1:                                            -                     
    SP2:                                            -                     
    SP3:        -                                                         
    SP4:                                                                  
    SP5:                                                                  


    ECgene alternative splicing isoforms for NXF1

    (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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    NXF1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CCTCAGAAGC
    NXF1 Expression
    About this image


    NXF1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 15) 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
     
     Bone (Muscoskeletal System)
             Bone Marrow
     
     Trophoblast (Extraembryonic Tissues)
             Trophoblast Cells Trophoblast
     
     Testis (Reproductive System)
             Leydig Cells Testis Interstitium
    NXF1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    NXF1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.523739

    UniProtKB/Swiss-Prot: NXF1_HUMAN, Q9UBU9
    Tissue specificity: Expressed ubiquitously

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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 animals and fungi.

    Orthologs for NXF1 gene from Selected species (see all 20)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Nxf11 , 5 nuclear RNA export factor 1 homolog (S. cerevisiae)5
    nuclear RNA export factor 11
    87.54(n)1
    91.26(a)1
      19 (5.50 cM)5
    533191  NM_016813.21  NP_058093.21 
     87570735 
    lizard
    (Anolis carolinensis)
    Reptilia NXF16
    nuclear RNA export factor 1
    69(a)
    1 ↔ 1
    GL343739.1(136184-168794)
    African clawed frog
    (Xenopus laevis)
    Amphibia CB591324.12   -- 73.19(n)    CB591324.1 
    zebrafish
    (Danio rerio)
    Actinopterygii mgab03e052 mgab03e05 71.4(n)   326948  BG727737.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta sbr1 , 3 poly(A)+ mRNA-nucleus export3
    small bristles1
    32(a)3
    45.78(n)1
    37.35(a)1
      439441  NM_079921.31  NP_524660.11 
    worm
    (Caenorhabditis elegans)
    Secernentea nxf-13
    nxf-21
    Leucine Rich Repeat (2 copies)3
    nxf-21
    27(a)3
    43.18(n)1
    32.16(a)1
      V(14415218-14418389)3
    1799381  NM_074167.61  NP_506568.21 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes MEX67(YPL169C)4
    MEX671
    Poly(A)RNA binding protein involved in nuclear mRNA more4
    MEX671
    37.68(n)1
    29.44(a)1
      16(230838-229039)4
    8559341, 4  NP_015156.11, 4 


    ENSEMBL Gene Tree for NXF1 (if available)
    TreeFam Gene Tree for NXF1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for NXF1 gene
    NXF32  NXF2B2  NXF22  NXF52  
    5 SIMAP similar genes for NXF1 using alignment to 7 protein entries:     NXF1_HUMAN (see all proteins):
    DKFZp667O0311    NXF2B    NXF2    NXF5    NXF3

    Find genes that share paralogs with NXF1           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 NXF1 (see all 301)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs776187591,2
    --62561563(+) GTGCCC/TAGGAA 2 -- int10--------
    rs1381938071,2
    C,F--62561743(+) CCACTC/G/TGAGGT 5 K Q E ut31 mis11NA 4552
    rs1813253491,2
    C--62561744(+) CACTCA/GAGGTT 3 L ut31 syn10--------
    rs2012748331,2
    --62561931(+) AGCACG/TTAAAA 2 -- int10--------
    rs1839163431,2
    C--62561946(+) AGACAA/GAGATA 2 -- int10--------
    rs1890440571,2
    C--62562009(+) GGTCCC/TCCTCC 2 -- int10--------
    rs1412137291,2
    C--62562110(+) CCAACA/GCATGG 2 -- int10--------
    rs1820704581,2
    --62562133(+) TTAATG/TCATCC 2 -- int10--------
    rs786944901,2
    F--62562161(+) AATGAA/GTATTG 2 -- int11Minor allele frequency- G:0.01WA 118
    rs784336861,2
    F--62562236(+) CCAGAC/TGGTAC 2 -- int11Minor allele frequency- T:0.06WA 118

    HapMap Linkage Disequilibrium report for NXF1 (62559595 - 62573774 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 5 variations for NXF1:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv509416CNV Insertion20534489
    nsv897624CNV Loss21882294
    nsv483055CNV Loss15286789
    nsv508636CNV Loss20534489
    nsv897623CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing NXF1
    DNA2.0 Custom Variant and Variant Library Synthesis for NXF1

    (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: 602647    OMIM disorders: --

    2 diseases for NXF1:    
    About MalaCards
    branchiootorenal syndrome    genital herpes

    1 disease from the University of Copenhagen DISEASES database for NXF1:
    Branchiootorenal syndrome

    Find genes that share disorders with NXF1           About GenesLikeMe

    4 Novoseek inferred disease relationships for NXF1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    immunodeficiency 7.77 4 19776134 (1), 8597949 (1), 11259602 (1), 10951562 (1)
    virus infection 0 1 15096184 (1)
    hepatocellular carcinoma 0 1 8803612 (1)
    tumors 0 2 8803612 (1), 17278102 (1)


    Export disorders for NXF1 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 NXF1 gene, integrated from 10 sources (see all 142):
    (articles sorted by number of sources associating them with NXF1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. TAP, the human homolog of Mex67p, mediates CTE-dependent RNA export from the nucleus. (PubMed id 9660949)1, 2, 3, 9 Grueter P.... Izaurralde E. (Mol. Cell 1998)
    2. Tap: a novel cellular protein that interacts with tip of herpesvirus saimiri and induces lymphocyte aggregation. (PubMed id 9175835)1, 2, 3, 9 Yoon D.-W.... Jung J.U. (Immunity 1997)
    3. TAP binds to the constitutive transport element (CTE) through a novel RNA-binding motif that is sufficient to promote CTE-dependent RNA export from the nucleus. (PubMed id 10202158)1, 2, 9 Braun I.C.... Izaurralde E. (EMBO J. 1999)
    4. Overexpression of TAP/p15 heterodimers bypasses nuclear retention and stimulates nuclear mRNA export. (PubMed id 11259411)1, 2, 9 Braun I.C.... Izaurralde E. (J. Biol. Chem. 2001)
    5. The structure of the mRNA export factor TAP reveals a cis arrangement of a non-canonical RNP domain and an LRR domain. (PubMed id 11060011)1, 2, 9 Liker E.... Conti E. (EMBO J. 2000)
    6. The Mex67p-mediated nuclear mRNA export pathway is conserved from yeast to human. (PubMed id 10228171)1, 2, 9 Katahira J....Hurt E. (EMBO J. 1999)
    7. Structural basis for the recognition of a nucleoporin FG repeat by the NTF2-like domain of the TAP/p15 mRNA nuclear export factor. (PubMed id 11583626)1, 2, 9 Fribourg S.... Conti E. (Mol. Cell 2001)
    8. Adaptor Aly and co-adaptor Thoc5 function in the Tap-p15-mediated nuclear export of HSP70 mRNA. (PubMed id 19165146)1, 2, 9 Katahira J.... Yoneda Y. (EMBO J. 2009)
    9. Structural basis for the interaction between the Tap/NXF1 UBA domain and FG nucleoporins at 1A resolution. (PubMed id 12581645)1, 2, 9 Grant R.P.... Stewart M. (J. Mol. Biol. 2003)
    10. Magoh, a human homolog of Drosophila mago nashi protein, is a component of the splicing-dependent exon-exon junction complex. (PubMed id 11707413)1, 2, 9 Kataoka N.... Dreyfuss G. (EMBO J. 2001)

    (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: 10482 HGNC: 8071 AceView: NXF1andMGC3196 Ensembl:ENSG00000162231 euGenes: HUgn10482
    ECgene: NXF1 Kegg: 10482 H-InvDB: NXF1

    (According to HUGE)
    About This Section

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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)
    About This Section

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    NameDescription
    PharmGKB entry for NXF1 Pharmacogenomics, SNPs, Pathways

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

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    Patent Information for NXF1 gene:
    Search GeneIP for patents involving NXF1

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



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