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    NXF1 nuclear RNA export factor 1 [ Homo sapiens (human) ]

    Gene ID: 10482, updated on 7-Jul-2024

    Summary

    Official Symbol
    NXF1provided by HGNC
    Official Full Name
    nuclear RNA export factor 1provided by HGNC
    Primary source
    HGNC:HGNC:8071
    See related
    Ensembl:ENSG00000162231 MIM:602647; AllianceGenome:HGNC:8071
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TAP; MEX67
    Summary
    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]
    Expression
    Ubiquitous expression in bone marrow (RPKM 39.4), spleen (RPKM 22.8) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See NXF1 in Genome Data Viewer
    Location:
    11q12.3
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (62792130..62805440, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (62781522..62794833, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (62559602..62572912, complement)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3429 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4846 Neighboring gene transmembrane protein 223 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4847 Neighboring gene TATA-box binding protein associated factor 6 like Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4848 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3430 Neighboring gene transmembrane protein 179B Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4849 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3431 Neighboring gene microRNA 6748 Neighboring gene microRNA 6514 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:62572705-62573204 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4850 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4851 Neighboring gene syntaxin 5 Neighboring gene RNA, U6 small nuclear 118, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4852 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4853 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4854 Neighboring gene STX5 divergent transcript Neighboring gene testis expressed 54

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of nuclear RNA export factor 1 (NXF1) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

    Protein interactions

    Protein Gene Interaction Pubs
    Pr55(Gag) gag NXF1 upregulates the RBM15-mediated Gag expression from pNLgag-RTE, suggesting cooperation between RBM15 and NXF1 PubMed
    gag NXF1 upregulates the OTT3-mediated Gag expression from pNLgag-RTE, suggesting cooperation between OTT3 and NXF1 PubMed
    gag Disruption of NXF1 expression downregulates MPMV CTE-mediated HIV-1 Gag expression PubMed
    Rev rev HIV-1 Rev specifically inhibits the association of TAP with spliced RRE-containing RNA and the TAP-dependent pathway reduces singly spliced and unspliced HIV-1 RNA levels PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • DKFZp667O0311

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables mRNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in mRNA export from nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in mRNA export from nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in poly(A)+ mRNA export from nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasmic stress granule IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    part_of nuclear RNA export factor complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    located_in nuclear inclusion body IEA
    Inferred from Electronic Annotation
    more info
     
    part_of nuclear pore IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of transcription export complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    nuclear RNA export factor 1
    Names
    mRNA export factor TAP
    tip associating protein
    tip-associated protein

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001081491.2NP_001074960.1  nuclear RNA export factor 1 isoform 2

      See identical proteins and their annotated locations for NP_001074960.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) includes an alternate segment, compared to variant 1, resulting in a shorter protein (isoform 2) that has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AB209915, AV750251, DB141140
      Consensus CDS
      CCDS44629.1
      UniProtKB/TrEMBL
      Q59E96
      Related
      ENSP00000453885.1, ENST00000531709.6
      Conserved Domains (3) summary
      sd00035
      Location:224266
      LRR_NTF; leucine-rich repeat [structural motif]
      pfam09162
      Location:116198
      Tap-RNA_bind; Tap, RNA-binding
      pfam13855
      Location:265327
      LRR_8; Leucine rich repeat
    2. NM_006362.5NP_006353.2  nuclear RNA export factor 1 isoform 1

      See identical proteins and their annotated locations for NP_006353.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AP001160, BC004904, BC028041
      Consensus CDS
      CCDS8037.1
      UniProtKB/Swiss-Prot
      B4E269, Q99799, Q9UBU9, Q9UQL2
      UniProtKB/TrEMBL
      E9PIN3
      Related
      ENSP00000294172.2, ENST00000294172.7
      Conserved Domains (6) summary
      smart00804
      Location:556618
      TAP_C; C-terminal domain of vertebrate Tap protein
      COG4886
      Location:200327
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      cd00780
      Location:382538
      NTF2; Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many ...
      sd00035
      Location:224266
      LRR_NTF; leucine-rich repeat [structural motif]
      pfam09162
      Location:116198
      Tap-RNA_bind; Tap, RNA-binding
      pfam13855
      Location:265327
      LRR_8; Leucine rich repeat

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      62792130..62805440 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047426247.1XP_047282203.1  nuclear RNA export factor 1 isoform X3

      UniProtKB/TrEMBL
      E9PIN3
    2. XM_047426246.1XP_047282202.1  nuclear RNA export factor 1 isoform X2

      UniProtKB/TrEMBL
      E9PIN3
    3. XM_047426245.1XP_047282201.1  nuclear RNA export factor 1 isoform X1

      UniProtKB/TrEMBL
      E9PIN3

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      62781522..62794833 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054367461.1XP_054223436.1  nuclear RNA export factor 1 isoform X3

      UniProtKB/TrEMBL
      E9PIN3
    2. XM_054367460.1XP_054223435.1  nuclear RNA export factor 1 isoform X2

      UniProtKB/TrEMBL
      E9PIN3
    3. XM_054367459.1XP_054223434.1  nuclear RNA export factor 1 isoform X1

      UniProtKB/TrEMBL
      E9PIN3