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

Gene ID: 10482, updated on 9-Feb-2020

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
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

Genomic context

See NXF1 in Genome Data Viewer
Location:
11q12.3
Exon count:
21
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (62792125..62805443, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (62559597..62572964, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene transmembrane protein 179B Neighboring gene microRNA 6748 Neighboring gene transmembrane protein 223 Neighboring gene microRNA 6514 Neighboring gene syntaxin 5 Neighboring gene RNA, U6 small nuclear 118, pseudogene Neighboring gene uncharacterized LOC105369332 Neighboring gene WD repeat domain 74

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

Homology

Clone Names

  • DKFZp667O0311

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
RNA export from nucleus TAS
Traceable Author Statement
more info
 
mRNA export from nucleus IDA
Inferred from Direct Assay
more info
PubMed 
mRNA export from nucleus TAS
Traceable Author Statement
more info
 
poly(A)+ mRNA export from nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
nuclear inclusion body IEA
Inferred from Electronic Annotation
more info
 
nuclear pore IEA
Inferred from Electronic Annotation
more info
 
nuclear speck IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
colocalizes_with 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)

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/Swiss-Prot
    Q9UBU9
    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
    Q9UBU9
    Related
    ENSP00000294172.2, ENST00000294172.7
    Conserved Domains (5) summary
    smart00804
    Location:556618
    TAP_C; C-terminal domain of vertebrate Tap protein
    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: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    62792125..62805443 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_001747724.2 RNA Sequence

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