Xpo4 (exportin 4) - Rat Genome Database

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Gene: Xpo4 (exportin 4) Rattus norvegicus
Analyze
Symbol: Xpo4
Name: exportin 4
RGD ID: 1312015
Description: Predicted to enable nuclear export signal receptor activity and small GTPase binding activity. Predicted to be involved in positive regulation of protein export from nucleus and protein export from nucleus. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of nuclear pore. Predicted to be active in cytoplasm and nucleus. Orthologous to human XPO4 (exportin 4); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: exportin-4; LOC290280
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Candidate Gene For: Bmd62
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81535,832,567 - 35,923,262 (-)NCBIGRCr8
mRatBN7.21531,717,016 - 31,807,723 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1531,716,762 - 31,807,908 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1533,708,328 - 33,799,027 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01534,859,012 - 34,949,705 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01533,117,089 - 33,207,790 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01537,835,580 - 37,926,715 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1537,835,580 - 37,926,715 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01541,680,885 - 41,771,826 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41536,611,526 - 36,702,464 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11536,631,660 - 36,717,994 (-)NCBI
Celera1531,427,422 - 31,518,478 (-)NCBICelera
Cytogenetic Map15p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA)
cytosol  (IEA,ISO)
nuclear pore  (IBA)
nucleoplasm  (IEA,ISO)
nucleus  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:16449645  


Genomics

Comparative Map Data
Xpo4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81535,832,567 - 35,923,262 (-)NCBIGRCr8
mRatBN7.21531,717,016 - 31,807,723 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1531,716,762 - 31,807,908 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1533,708,328 - 33,799,027 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01534,859,012 - 34,949,705 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01533,117,089 - 33,207,790 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01537,835,580 - 37,926,715 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1537,835,580 - 37,926,715 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01541,680,885 - 41,771,826 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41536,611,526 - 36,702,464 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11536,631,660 - 36,717,994 (-)NCBI
Celera1531,427,422 - 31,518,478 (-)NCBICelera
Cytogenetic Map15p12NCBI
XPO4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381320,777,329 - 20,902,774 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1320,777,329 - 20,903,048 (-)EnsemblGRCh38hg38GRCh38
GRCh371321,351,468 - 21,476,913 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361320,249,468 - 20,374,913 (-)NCBINCBI36Build 36hg18NCBI36
Build 341320,251,014 - 20,340,840NCBI
Celera132,413,409 - 2,538,856 (-)NCBICelera
Cytogenetic Map13q12.11NCBI
HuRef132,154,552 - 2,279,991 (-)NCBIHuRef
CHM1_11321,319,619 - 21,445,055 (-)NCBICHM1_1
T2T-CHM13v2.01319,970,477 - 20,095,920 (-)NCBIT2T-CHM13v2.0
Xpo4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391457,814,978 - 57,906,951 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1457,814,978 - 57,902,887 (-)EnsemblGRCm39 Ensembl
GRCm381457,577,521 - 57,668,232 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1457,577,521 - 57,665,430 (-)EnsemblGRCm38mm10GRCm38
MGSCv371458,201,108 - 58,283,793 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361456,536,381 - 56,619,066 (-)NCBIMGSCv36mm8
Celera1455,383,509 - 55,466,992 (-)NCBICelera
Cytogenetic Map14C3NCBI
cM Map1430.11NCBI
Xpo4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554971,563,008 - 1,641,863 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554971,562,945 - 1,661,379 (-)NCBIChiLan1.0ChiLan1.0
XPO4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21420,409,061 - 20,533,471 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11311,522,856 - 11,646,429 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0132,105,931 - 2,230,115 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11320,418,609 - 20,542,369 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1320,418,609 - 20,542,370 (-)Ensemblpanpan1.1panPan2
XPO4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12517,230,401 - 17,352,600 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2517,230,031 - 17,348,031 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2517,262,478 - 17,384,717 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02517,369,445 - 17,491,740 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2517,369,293 - 17,489,394 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12517,240,963 - 17,363,003 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02517,252,259 - 17,374,393 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02517,308,636 - 17,431,159 (+)NCBIUU_Cfam_GSD_1.0
Xpo4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945119,288,536 - 119,403,436 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936720836,145 - 950,696 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936720836,145 - 948,460 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
XPO4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl111,105,014 - 1,208,116 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1111,104,270 - 1,208,144 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.211230,222 - 290,419 (-)NCBISscrofa10.2Sscrofa10.2susScr3
XPO4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.13242,281 - 348,298 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl3301,551 - 343,468 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605744,255,815 - 44,365,121 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Xpo4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477616,695,972 - 16,821,047 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477616,695,972 - 16,822,699 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Xpo4
67 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:851
Count of miRNA genes:292
Interacting mature miRNAs:422
Transcripts:ENSRNOT00000013901
Prediction methods:Microtar, Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 18 32 16 18 16 7 7 40 28 41 8 7
Low 3 25 25 25 1 25 1 4 34 7 3 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000013901   ⟹   ENSRNOP00000013902
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1531,716,762 - 31,807,908 (-)Ensembl
Rnor_6.0 Ensembl1537,835,580 - 37,926,715 (-)Ensembl
RefSeq Acc Id: NM_001395629   ⟹   NP_001382558
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,832,567 - 35,923,262 (-)NCBI
mRatBN7.21531,717,018 - 31,807,723 (-)NCBI
RefSeq Acc Id: XM_039093140   ⟹   XP_038949068
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,837,874 - 35,923,196 (-)NCBI
mRatBN7.21531,717,016 - 31,807,659 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001382558 (Get FASTA)   NCBI Sequence Viewer  
  XP_038949068 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM14355 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013902
  ENSRNOP00000013902.6
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000013902   ⟸   ENSRNOT00000013901
RefSeq Acc Id: XP_038949068   ⟸   XM_039093140
- Peptide Label: isoform X1
- UniProtKB: A6KHC6 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001382558   ⟸   NM_001395629
- UniProtKB: A6KHC6 (UniProtKB/TrEMBL)
Protein Domains
Exportin-1 C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZQI6-F1-model_v2 AlphaFold D3ZQI6 1-1148 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13699722
Promoter ID:EPDNEW_R10246
Type:multiple initiation site
Name:Xpo4_2
Description:exportin 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R10247  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01537,926,524 - 37,926,584EPDNEW
RGD ID:13699723
Promoter ID:EPDNEW_R10247
Type:multiple initiation site
Name:Xpo4_1
Description:exportin 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R10246  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01537,926,798 - 37,926,858EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1312015 AgrOrtholog
BioCyc Gene G2FUF-13600 BioCyc
Ensembl Genes ENSRNOG00000010137 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013901 ENTREZGENE
  ENSRNOT00000013901.7 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  XPO1_C_dom UniProtKB/TrEMBL
  XPO4/7-like UniProtKB/TrEMBL
KEGG Report rno:290280 UniProtKB/TrEMBL
NCBI Gene 290280 ENTREZGENE
PANTHER EXPORTIN-4 UniProtKB/TrEMBL
  PTHR12596 UniProtKB/TrEMBL
Pfam CRM1_C UniProtKB/TrEMBL
PhenoGen Xpo4 PhenoGen
RatGTEx ENSRNOG00000010137 RatGTEx
Superfamily-SCOP ARM-type_fold UniProtKB/TrEMBL
UniProt A6KHC6 ENTREZGENE, UniProtKB/TrEMBL
  D3ZQI6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Xpo4  exportin 4   Xpo4_predicted  exportin 4 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Xpo4_predicted  exportin 4 (predicted)      Symbol and Name status set to approved 70820 APPROVED