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 wi... See more...

Aliases for NXF3 Gene

Aliases for NXF3 Gene

  • Nuclear RNA Export Factor 3 2 3 4 5
  • TAP-Like Protein 3 3 4
  • TAPL-3 3 4
  • TAPL3 4
  • NXF3 5

External Ids for NXF3 Gene

Previous GeneCards Identifiers for NXF3 Gene

  • GC0XM097632
  • GC0XM099239
  • GC0XM100363
  • GC0XM101102
  • GC0XM102136
  • GC0XM102219
  • GC0XM102330
  • GC0XM091994

Summaries for NXF3 Gene

Entrez Gene Summary for NXF3 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 has shortened LRR and ubiquitin-associated domains and its RDB is unable to bind RNA. It is located in the nucleoplasm but is not associated with either the nuclear envelope or the nucleolus. [provided by RefSeq, Jul 2008]

GeneCards Summary for NXF3 Gene

NXF3 (Nuclear RNA Export Factor 3) is a Protein Coding gene. Among its related pathways are Measles and mRNA surveillance pathway. Gene Ontology (GO) annotations related to this gene include RNA binding and mRNA binding. An important paralog of this gene is NXF2.

UniProtKB/Swiss-Prot Summary for NXF3 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for NXF3 Gene

Genomics for NXF3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for NXF3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH0XJ103093 Promoter/Enhancer 0.7 EPDnew Ensembl 600.7 +0.0 42 0.6 GABPA POLR2A NXF3 ENSG00000226241 lnc-BEX4-1 BEX1
GH0XJ103102 Enhancer 1.1 Ensembl ENCODE 0.4 -8.6 -8550 0.7 RFX1 LEF1 IKZF1 DDX20 MTA2 PHF21A PKNOX1 ZNF24 MTA1 REST BEX4 piR-30591-005 piR-49423-299 NXF3
GH0XJ103151 Enhancer 1.1 Ensembl ENCODE 0.2 -59.6 -59557 2.2 CREB1 PRDM10 ZNF629 ZNF512 RFX1 IKZF1 ZNF692 JUND PRDM1 MTA2 BEX4 GPRASP1 TCEAL3 ENSG00000234345 TMSB15B ZCCHC18 GPRASP2 BEX3 TCEAL7 TCEAL1
GH0XJ103087 Promoter 0.3 Ensembl 0.4 +6.0 6042 0.2 ENSG00000226241 LOC100128601 lnc-BEX4-1 piR-57461-307 NXF3 BEX1
GH0XJ103157 Enhancer 0.5 Ensembl 0.2 -64.7 -64749 1.1 CEBPG CTCF REST RAD21 CEBPB SMC3 ZNF654 TRIM22 RF00019-110 BEX4 RPSAP59 lnc-TCEAL8-2 NXF3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NXF3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for NXF3

Top Transcription factor binding sites by QIAGEN in the NXF3 gene promoter:
  • AML1a
  • AREB6
  • COUP
  • COUP-TF
  • COUP-TF1
  • E2F
  • HNF-4alpha1
  • HNF-4alpha2
  • STAT5A
  • TBP

Genomic Locations for NXF3 Gene

Genomic Locations for NXF3 Gene
chrX:103,075,810-103,093,143
(GRCh38/hg38)
Size:
17,334 bases
Orientation:
Minus strand
chrX:102,330,738-102,348,157
(GRCh37/hg19)
Size:
17,420 bases
Orientation:
Minus strand

Genomic View for NXF3 Gene

Genes around NXF3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NXF3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NXF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NXF3 Gene

Proteins for NXF3 Gene

  • Protein details for NXF3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H4D5-NXF3_HUMAN
    Recommended name:
    Nuclear RNA export factor 3
    Protein Accession:
    Q9H4D5
    Secondary Accessions:
    • B4DYS7
    • Q5H9I1
    • Q9H1A9

    Protein attributes for NXF3 Gene

    Size:
    531 amino acids
    Molecular mass:
    60102 Da
    Quaternary structure:
    • Interacts with NXT1, NXT2, E1B-AP5 and CRM1 nuclear export factor.
    SequenceCaution:
    • Sequence=CAC20434.1; Type=Frameshift; Evidence={ECO:0000305};

    Alternative splice isoforms for NXF3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NXF3 Gene

Post-translational modifications for NXF3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for NXF3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for NXF3 Gene

Domains & Families for NXF3 Gene

Gene Families for NXF3 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for NXF3 Gene

Suggested Antigen Peptide Sequences for NXF3 Gene

GenScript: Design optimal peptide antigens:
  • TAP-like protein 3 (NXF3_HUMAN)
  • Nuclear RNA export factor 3 (Q5H9I2_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9H4D5

UniProtKB/Swiss-Prot:

NXF3_HUMAN :
  • Lacks C-terminal domain that mediates direct interactions with nucleoporins.
  • Belongs to the NXF family.
Domain:
  • Lacks C-terminal domain that mediates direct interactions with nucleoporins.
  • Contains a novel CRM1-dependent nuclear export signal that compensates in cis for the loss of the nuclear pore targeting domain.
  • The RNA-binding domain is a non-canonical RNP-type domain.
Family:
  • Belongs to the NXF family.
genes like me logo Genes that share domains with NXF3: view

Function for NXF3 Gene

Molecular function for NXF3 Gene

UniProtKB/Swiss-Prot Function:
May function as a tissue-specific nuclear mRNA export factor.

Phenotypes From GWAS Catalog for NXF3 Gene

Gene Ontology (GO) - Molecular Function for NXF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA,IBA 21873635
GO:0003729 mRNA binding IEA --
GO:0005515 protein binding IPI 11545741
genes like me logo Genes that share ontologies with NXF3: view
genes like me logo Genes that share phenotypes with NXF3: view

Animal Models for NXF3 Gene

MGI Knock Outs for NXF3:
  • Nxf3 Nxf3<tm1.2Jw>

Animal Model Products

CRISPR Products

miRNA for NXF3 Gene

miRTarBase miRNAs that target NXF3

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NXF3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for NXF3 Gene

Localization for NXF3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NXF3 Gene

Nucleus. Cytoplasm. Note=Shuttles between the nucleus and the cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NXF3 gene
Compartment Confidence
nucleus 5
cytosol 2
cytoskeleton 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for NXF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 11545741
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA,IDA 11545741
GO:0042025 host cell nucleus IEA --
GO:0042272 nuclear RNA export factor complex IDA 11545741
genes like me logo Genes that share ontologies with NXF3: view

Pathways & Interactions for NXF3 Gene

genes like me logo Genes that share pathways with NXF3: view

Gene Ontology (GO) - Biological Process for NXF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006406 mRNA export from nucleus IEA,IDA 11545741
GO:0016973 poly(A)+ mRNA export from nucleus IBA 21873635
GO:0051028 mRNA transport IEA --
genes like me logo Genes that share ontologies with NXF3: view

No data available for SIGNOR curated interactions for NXF3 Gene

Drugs & Compounds for NXF3 Gene

No Compound Related Data Available

Transcripts for NXF3 Gene

mRNA/cDNA for NXF3 Gene

1 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
7 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NXF3

Alternative Splicing Database (ASD) splice patterns (SP) for NXF3 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20
SP1: -
SP2:
SP3: -

Relevant External Links for NXF3 Gene

GeneLoc Exon Structure for
NXF3

Expression for NXF3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NXF3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for NXF3 Gene

This gene is overexpressed in Testis (x37.0).

Protein differential expression in normal tissues from HIPED for NXF3 Gene

This gene is overexpressed in Testis (61.5) and Ovary (7.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for NXF3 Gene



Protein tissue co-expression partners for NXF3 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for NXF3

SOURCE GeneReport for Unigene cluster for NXF3 Gene:

Hs.60386

mRNA Expression by UniProt/SwissProt for NXF3 Gene:

Q9H4D5-NXF3_HUMAN
Tissue specificity: Expressed at high level in testis and at low level in a small number of tissues.

Evidence on tissue expression from TISSUES for NXF3 Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with NXF3: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for NXF3 Gene

Orthologs for NXF3 Gene

This gene was present in the common ancestor of animals.

Orthologs for NXF3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia NXF3 30 31
  • 99 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia NXF3 30 31
  • 79.17 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia LOC100337148 30
  • 74.4 (n)
-- 31
  • 56 (a)
OneToMany
-- 31
  • 55 (a)
OneToMany
-- 31
  • 55 (a)
OneToMany
-- 31
  • 53 (a)
OneToMany
-- 31
  • 52 (a)
OneToMany
-- 31
  • 49 (a)
OneToMany
Rat
(Rattus norvegicus)
Mammalia Nxf3 30
  • 69.89 (n)
Mouse
(Mus musculus)
Mammalia Nxf3 30 17 31
  • 69.44 (n)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta sbr 31
  • 18 (a)
ManyToMany
Nxf3 31
  • 14 (a)
ManyToMany
nxf2 31
  • 12 (a)
ManyToMany
Worm
(Caenorhabditis elegans)
Secernentea nxf-2 31
  • 20 (a)
ManyToMany
nxf-1 31
  • 17 (a)
ManyToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 23 (a)
OneToMany
Species where no ortholog for NXF3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Lizard (Anolis carolinensis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Zebrafish (Danio rerio)

Evolution for NXF3 Gene

ENSEMBL:
Gene Tree for NXF3 (if available)
TreeFam:
Gene Tree for NXF3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for NXF3: view image

Paralogs for NXF3 Gene

Paralogs for NXF3 Gene

(5) SIMAP similar genes for NXF3 Gene using alignment to 5 proteins:

  • NXF3_HUMAN
  • B4DYS7_HUMAN
  • E9PE86_HUMAN
  • H0Y6A1_HUMAN
  • L8ECJ5_HUMAN

Pseudogenes.org Pseudogenes for NXF3 Gene

genes like me logo Genes that share paralogs with NXF3: view

Variants for NXF3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for NXF3 Gene

SNP ID Clinical significance and condition Chr 0X pos Variation AA Info Type
rs2301387 - p.Asn186Ile

Additional dbSNP identifiers (rs#s) for NXF3 Gene

Variation tolerance for NXF3 Gene

Residual Variation Intolerance Score: 52.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.33; 7.36% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NXF3 Gene

Human Gene Mutation Database (HGMD)
NXF3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
NXF3

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for NXF3 Gene

Disorders for NXF3 Gene

No disorders were found for NXF3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NXF3 Gene

Publications for NXF3 Gene

  1. TAP (NXF1) belongs to a multigene family of putative RNA export factors with a conserved modular architecture. (PMID: 11073998) Herold A … Izaurralde E (Molecular and cellular biology 2000) 2 3 4 23
  2. Two closely related human nuclear export factors utilize entirely distinct export pathways. (PMID: 11545741) Yang J … Cullen BR (Molecular cell 2001) 3 4 23
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  5. NXF5, a novel member of the nuclear RNA export factor family, is lost in a male patient with a syndromic form of mental retardation. (PMID: 11566096) Jun L … Froyen G (Current biology : CB 2001) 3 4

Products for NXF3 Gene

  • Signalway Proteins for NXF3

Sources for NXF3 Gene