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

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: mouse all
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Genomic context

Location:: 11q12.3

Exon count:: 22

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	11	NC_000011.10 (62792130..62805440, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	11	NC_060935.1 (62781522..62794833, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	11	NC_000011.9 (62559602..62572912, complement)

Chromosome 11 - NC_000011.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Tissue-specific circular RNA induction during human fetal development
Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
BioProject: PRJNA270632
Publication: PMID 26076956
Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interaction of CDK12 with NXF1 is a new node for the linking mechanism between transcription and transportation of mRNA.
Title: Interaction of CDK12 with NXF1 is a new node for the linking mechanism between transcription and transportation of mRNA.
HnRNPA2B1 ISGylation Regulates m6A-Tagged mRNA Selective Export via ALYREF/NXF1 Complex to Foster Breast Cancer Development.
Title: HnRNPA2B1 ISGylation Regulates m6A-Tagged mRNA Selective Export via ALYREF/NXF1 Complex to Foster Breast Cancer Development.
Association between TAP gene polymorphisms and tuberculosis susceptibility in a Han Chinese population in Guangdong.
Title: Association between TAP gene polymorphisms and tuberculosis susceptibility in a Han Chinese population in Guangdong.
The Ebola Virus Nucleoprotein Recruits the Nuclear RNA Export Factor NXF1 into Inclusion Bodies to Facilitate Viral Protein Expression.
Title: The Ebola Virus Nucleoprotein Recruits the Nuclear RNA Export Factor NXF1 into Inclusion Bodies to Facilitate Viral Protein Expression.
Using iCLIP, we show that the export receptor Nxf1 and two TREX subunits, Alyref and Chtop, are recruited to the whole mRNA co-transcriptionally via splicing but before 3' end processing.
Title: Co-transcriptional Loading of RNA Export Factors Shapes the Human Transcriptome.
NXF1 is involved in coordinating transcriptional dynamics, 3' end processing, and nuclear export of long 3' UTR transcripts, implicating NXF1 as a nexus of gene regulation.
Title: The mRNA Export Receptor NXF1 Coordinates Transcriptional Dynamics, Alternative Polyadenylation, and mRNA Export.
Gain or loss-of-function experiments revealed NXF1 selectively regulates TLR7-driven IRF5 transcriptional activity, suggesting a new role for NXF1 in the IRF5 signaling pathway.
Title: RNAi Screen and Proteomics Reveal NXF1 as a Novel Regulator of IRF5 Signaling.
repeat RNA-sequestration of SRSF1 triggers the NXF1-dependent nuclear export of C9ORF72 transcripts retaining expanded hexanucleotide repeats
Title: SRSF1-dependent nuclear export inhibition of C9ORF72 repeat transcripts prevents neurodegeneration and associated motor deficits.
small hairpin RNA-mediated down-regulation of TAP or Aly reduced nuclear export of HDAg-L and assembly of HDV virions. Furthermore, a peptide, TAT-HDAg-L(198-210), containing the 10-amino acid TAT peptide and HDAg-L(198-210), inhibited the interaction between HDAg-L and TAP and blocked HDV virion assembly and secretion.
Title: Cellular Nuclear Export Factors TAP and Aly Are Required for HDAg-L-mediated Assembly of Hepatitis Delta Virus.
Hepatitis B virus core protein associates with the cellular NXF1-p15 complex via the nuclear export signal motif of hepatitis B virus core protein.Nuclear export of human hepatitis B virus core protein and pregenomic RNA depends on the NXF1-p15 machinery.
Title: Nuclear export of human hepatitis B virus core protein and pregenomic RNA depends on the cellular NXF1-p15 machinery.

Submit: New GeneRIF Correction See all GeneRIFs (41)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

G19937 (e-PCR)
- UniSTS:62729

A002C37 (e-PCR)
- UniSTS:62730

SHGC-31800 (e-PCR)
- UniSTS:16421

WI-19608 (e-PCR)
- UniSTS:12860

RH46572 (e-PCR)
- UniSTS:33610

RH16408 (e-PCR)
- UniSTS:4716

STS-U26648 (e-PCR)
- UniSTS:69568

RH80822 (e-PCR)
- UniSTS:87760

G62080 (e-PCR)
- UniSTS:139223

D11S2875 (e-PCR)
- UniSTS:152053

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA binding	HDA more info	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

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Preferred Names: nuclear RNA export factor 1

Names: mRNA export factor TAP; tip associating protein; tip-associated protein

NCBI Reference Sequences (RefSeq)

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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)

NM_001081491.2 → NP_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:224 → 266

LRR_NTF; leucine-rich repeat [structural motif]

pfam09162
Location:116 → 198

Tap-RNA_bind; Tap, RNA-binding

pfam13855
Location:265 → 327

LRR_8; Leucine rich repeat
NM_006362.5 → NP_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:556 → 618

TAP_C; C-terminal domain of vertebrate Tap protein

COG4886
Location:200 → 327

LRR; Leucine-rich repeat (LRR) protein [Transcription]

cd00780
Location:382 → 538

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:224 → 266

LRR_NTF; leucine-rich repeat [structural motif]

pfam09162
Location:116 → 198

Tap-RNA_bind; Tap, RNA-binding

pfam13855
Location:265 → 327

LRR_8; Leucine rich repeat

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000011.10 Reference GRCh38.p14 Primary Assembly

Range

62792130..62805440 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

E9PIN3
XM_047426246.1 → XP_047282202.1 nuclear RNA export factor 1 isoform X2

UniProtKB/TrEMBL

E9PIN3
XM_047426245.1 → XP_047282201.1 nuclear RNA export factor 1 isoform X1

UniProtKB/TrEMBL

E9PIN3

Alternate T2T-CHM13v2.0

Genomic

NC_060935.1 Alternate T2T-CHM13v2.0

Range

62781522..62794833 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

E9PIN3
XM_054367460.1 → XP_054223435.1 nuclear RNA export factor 1 isoform X2

UniProtKB/TrEMBL

E9PIN3
XM_054367459.1 → XP_054223434.1 nuclear RNA export factor 1 isoform X1

UniProtKB/TrEMBL

E9PIN3