Human Gene NXT1 (uc002wsx.1) Description and Page Index
  Description: Homo sapiens NTF2-like export factor 1 (NXT1), mRNA.
RefSeq Summary (NM_013248): The protein encoded by this gene is located in the nuclear envelope. It has protein similarity to nuclear transport factor 2. This protein functions as a nuclear export factor in both RAN (Ras-related nuclear protein)- and CRM1 (required for chromosome region maintenance)-dependent pathways. It is found to stimulate the export of U1 snRNA in RAN- and CRM1-dependent pathways and the export of tRNA and mRNA in a CRM1-independent pathway. The encoded protein heterodimerizes with Tap protein and may regulate the ability of Tap protein to mediate nuclear mRNA export. The use of alternate polyadenylation sites has been found for this gene. [provided by RefSeq, Jul 2008]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: BC003410.1, SRR5189661.8840.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1966682 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000254998.3/ ENSP00000254998.2 RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr20:23,331,373-23,335,408 Size: 4,036 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr20:23,334,679-23,335,101 Size: 423 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-15

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr20:23,331,373-23,335,408)mRNA (may differ from genome)Protein (140 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: NXT1_HUMAN
DESCRIPTION: RecName: Full=NTF2-related export protein 1; AltName: Full=Protein p15;
FUNCTION: Stimulator of protein export for NES-containing proteins. Also plays a role in the nuclear export of U1 snRNA, tRNA, and mRNA. The NXF1-NXT1 heterodimer is involved in the export of HSP70 mRNA in conjunction with ALYREF/THOC4 and THOC5.
SUBUNIT: Heterodimer with NXF1. Interacts (via NTF2 domain) with NXF1. Stablizes the NTF2 domain of NXF1 by heterodimerization. The formation of NXF1/NXT1 heterodimers is required for the NXF1- mediated nuclear mRNA export. Preferentially binds Ran-GTP. Associates with NXF2, NXF3 and NXF5. Does not bind nucleoporins (NPC) directly, its association to NPC is mediated by NXF1.
INTERACTION: Q9UBU9:NXF1; NbExp=2; IntAct=EBI-301889, EBI-398874; Q9H4D5:NXF3; NbExp=3; IntAct=EBI-301889, EBI-750038; Q9BP41:Ranbp21 (xeno); NbExp=2; IntAct=EBI-301889, EBI-301896;
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Note=Shuttles between the nucleus and the cytoplasm.
SIMILARITY: Contains 1 NTF2 domain.

-  MalaCards Disease Associations
  MalaCards Gene Search: NXT1
Diseases sorted by gene-association score: st. louis encephalitis (3)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 21.31 RPKM in Fallopian Tube
Total median expression: 494.26 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -196.30387-0.507 Picture PostScript Text
3' UTR -81.60307-0.266 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR002075 - NTF2
IPR018222 - Nuclear_transport_factor_2_euk

Pfam Domains:
PF02136 - Nuclear transport factor 2 (NTF2) domain

SCOP Domains:
54427 - NTF2-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help

1JKG
- X-ray MuPIT

1JN5
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9UKK6
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0008536 Ran GTPase binding

Biological Process:
GO:0006405 RNA export from nucleus
GO:0006406 mRNA export from nucleus
GO:0006611 protein export from nucleus
GO:0015031 protein transport

Cellular Component:
GO:0005634 nucleus
GO:0005643 nuclear pore
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016607 nuclear speck


-  Descriptions from all associated GenBank mRNAs
  BC003410 - Homo sapiens NTF2-like export factor 1, mRNA (cDNA clone MGC:4978 IMAGE:3450767), complete cds.
AK026360 - Homo sapiens cDNA: FLJ22707 fis, clone HSI13259, highly similar to AF156957 Homo sapiens NTF2-related export protein NXT1 (NXT1) mRNA.
JD354469 - Sequence 335493 from Patent EP1572962.
JD407095 - Sequence 388119 from Patent EP1572962.
BC000759 - Homo sapiens NTF2-like export factor 1, mRNA (cDNA clone MGC:2701 IMAGE:2820775), complete cds.
BC003029 - Homo sapiens NTF2-like export factor 1, mRNA (cDNA clone MGC:4329 IMAGE:2820775), complete cds.
AF156957 - Homo sapiens NTF2-related export protein NXT1 (NXT1) mRNA, complete cds.
BC002687 - Homo sapiens NTF2-like export factor 1, mRNA (cDNA clone MGC:3469 IMAGE:3608037), complete cds.
JD148755 - Sequence 129779 from Patent EP1572962.
JD380475 - Sequence 361499 from Patent EP1572962.
JD095944 - Sequence 76968 from Patent EP1572962.
JD062603 - Sequence 43627 from Patent EP1572962.
JD471396 - Sequence 452420 from Patent EP1572962.
JD178342 - Sequence 159366 from Patent EP1572962.
JD319035 - Sequence 300059 from Patent EP1572962.
CU678460 - Synthetic construct Homo sapiens gateway clone IMAGE:100017924 5' read NXT1 mRNA.
AB464644 - Synthetic construct DNA, clone: pF1KB8750, Homo sapiens NXT1 gene for NTF2-like export factor 1, without stop codon, in Flexi system.
KJ893687 - Synthetic construct Homo sapiens clone ccsbBroadEn_03081 NXT1 gene, encodes complete protein.
JD051842 - Sequence 32866 from Patent EP1572962.
JD554196 - Sequence 535220 from Patent EP1572962.
JD425648 - Sequence 406672 from Patent EP1572962.
JD220477 - Sequence 201501 from Patent EP1572962.
JD565301 - Sequence 546325 from Patent EP1572962.
JD133764 - Sequence 114788 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9UKK6 (Reactome details) participates in the following event(s):

R-HSA-75098 mRNP complex dissociates from cytosolic face of NPC
R-HSA-159101 NXF1:NXT1 (TAP:p15) binds capped mRNA:CBC:EJC:TREX (minus DDX39B)
R-HSA-75096 Docking of the TAP:EJC Complex with the NPC
R-HSA-159236 Transport of Mature mRNA derived from an Intron-Containing Transcript
R-HSA-72202 Transport of Mature Transcript to Cytoplasm
R-HSA-72203 Processing of Capped Intron-Containing Pre-mRNA
R-HSA-8953854 Metabolism of RNA

-  Other Names for This Gene
  Alternate Gene Symbols: NM_013248, NP_037380, NXT1_HUMAN, Q9UKK6
UCSC ID: uc002wsx.1
RefSeq Accession: NM_013248
Protein: Q9UKK6 (aka NXT1_HUMAN)
CCDS: CCDS13150.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_013248.2
exon count: 2CDS single in 3' UTR: no RNA size: 1176
ORF size: 423CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1028.00frame shift in genome: no % Coverage: 94.98
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.