Tnpo3 (transportin 3) - Rat Genome Database

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Gene: Tnpo3 (transportin 3) Rattus norvegicus
Analyze
Symbol: Tnpo3
Name: transportin 3
RGD ID: 1308938
Description: Predicted to enable identical protein binding activity and small GTPase binding activity. Predicted to be involved in protein import into nucleus. Predicted to be located in annulate lamellae and nuclear envelope. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in autosomal dominant limb-girdle muscular dystrophy type 2. Orthologous to human TNPO3 (transportin 3); INTERACTS WITH (+)-schisandrin B; 17beta-estradiol 3-benzoate; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC296954; transportin-3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2458,142,954 - 58,220,365 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl458,143,001 - 58,220,433 (-)Ensembl
Rnor_6.0456,820,023 - 56,897,310 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl456,820,023 - 56,897,338 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0456,587,184 - 56,664,471 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4456,422,446 - 56,499,733 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1456,682,348 - 56,760,325 (-)NCBI
Celera453,250,776 - 53,328,057 (-)NCBICelera
Cytogenetic Map4q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12628928   PMID:22872640   PMID:23878195   PMID:24449914   PMID:30916345   PMID:31192305   PMID:31465518  


Genomics

Comparative Map Data
Tnpo3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2458,142,954 - 58,220,365 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl458,143,001 - 58,220,433 (-)Ensembl
Rnor_6.0456,820,023 - 56,897,310 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl456,820,023 - 56,897,338 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0456,587,184 - 56,664,471 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4456,422,446 - 56,499,733 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1456,682,348 - 56,760,325 (-)NCBI
Celera453,250,776 - 53,328,057 (-)NCBICelera
Cytogenetic Map4q22NCBI
TNPO3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387128,954,185 - 129,056,193 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl7128,954,180 - 129,055,173 (-)EnsemblGRCh38hg38GRCh38
GRCh377128,594,239 - 128,695,165 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367128,382,184 - 128,482,434 (-)NCBINCBI36hg18NCBI36
Build 347128,188,898 - 128,289,149NCBI
Celera7123,390,730 - 123,491,720 (-)NCBI
Cytogenetic Map7q32.1NCBI
HuRef7122,955,420 - 123,056,377 (-)NCBIHuRef
CHM1_17128,527,540 - 128,628,528 (-)NCBICHM1_1
T2T-CHM13v2.07130,267,070 - 130,367,981 (-)NCBI
CRA_TCAGchr7v27127,977,977 - 128,078,965 (-)NCBI
Tnpo3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39629,540,826 - 29,609,918 (-)NCBIGRCm39mm39
GRCm39 Ensembl629,540,826 - 29,609,886 (-)Ensembl
GRCm38629,540,827 - 29,609,858 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl629,540,827 - 29,609,887 (-)EnsemblGRCm38mm10GRCm38
MGSCv37629,490,827 - 29,559,607 (-)NCBIGRCm37mm9NCBIm37
MGSCv36629,490,837 - 29,559,617 (-)NCBImm8
Celera629,549,675 - 29,618,438 (-)NCBICelera
Cytogenetic Map6A3.3NCBI
cM Map612.36NCBI
Tnpo3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554799,740,805 - 9,831,339 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554799,739,927 - 9,831,276 (-)NCBIChiLan1.0ChiLan1.0
TNPO3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17133,430,495 - 133,531,771 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7133,430,490 - 133,531,774 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v07120,906,238 - 121,008,216 (-)NCBIMhudiblu_PPA_v0panPan3
TNPO3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1147,639,276 - 7,722,453 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl147,639,558 - 7,722,351 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha147,326,495 - 7,409,297 (+)NCBI
ROS_Cfam_1.0147,405,066 - 7,488,297 (+)NCBI
ROS_Cfam_1.0 Ensembl147,405,082 - 7,489,141 (+)Ensembl
UMICH_Zoey_3.1147,610,134 - 7,693,338 (+)NCBI
UNSW_CanFamBas_1.0147,352,085 - 7,435,363 (+)NCBI
UU_Cfam_GSD_1.0147,497,117 - 7,580,541 (+)NCBI
Tnpo3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511825,915,334 - 26,001,614 (+)NCBI
SpeTri2.0NW_0049365796,047,900 - 6,134,211 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNPO3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1819,572,811 - 19,673,166 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11819,572,555 - 19,673,165 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21820,641,615 - 20,742,751 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TNPO3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12197,554,484 - 97,654,289 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2197,553,519 - 97,653,889 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660425,747,926 - 5,847,780 (+)NCBIVero_WHO_p1.0
Tnpo3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247837,168,867 - 7,261,261 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247837,168,865 - 7,261,008 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH128447  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2458,143,127 - 58,143,336 (+)MAPPERmRatBN7.2
Rnor_6.0456,820,132 - 56,820,340NCBIRnor6.0
Rnor_5.0456,587,293 - 56,587,501UniSTSRnor5.0
RGSC_v3.4456,422,555 - 56,422,763UniSTSRGSC3.4
Celera453,250,885 - 53,251,093UniSTS
RH 3.4 Map4303.02UniSTS
Cytogenetic Map4q22UniSTS
RH142454  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2458,186,780 - 58,186,882 (+)MAPPERmRatBN7.2
Rnor_6.0456,863,781 - 56,863,882NCBIRnor6.0
Rnor_5.0456,630,942 - 56,631,043UniSTSRnor5.0
RGSC_v3.4456,466,204 - 56,466,305UniSTSRGSC3.4
Celera453,294,532 - 53,294,633UniSTS
RH 3.4 Map4304.5UniSTS
Cytogenetic Map4q22UniSTS
RH141220  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map4303.12UniSTS
Cytogenetic Map4q22UniSTS
AU049162  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2458,149,994 - 58,150,250 (+)MAPPERmRatBN7.2
Rnor_6.0456,826,998 - 56,827,253NCBIRnor6.0
Rnor_5.0456,594,159 - 56,594,414UniSTSRnor5.0
RGSC_v3.4456,429,421 - 56,429,676UniSTSRGSC3.4
Celera453,257,751 - 53,258,006UniSTS
Cytogenetic Map4q22UniSTS
RH127018  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2458,143,750 - 58,143,967 (+)MAPPERmRatBN7.2
Rnor_6.0456,820,755 - 56,820,971NCBIRnor6.0
Rnor_5.0456,587,916 - 56,588,132UniSTSRnor5.0
RGSC_v3.4456,423,178 - 56,423,394UniSTSRGSC3.4
Celera453,251,508 - 53,251,724UniSTS
Cytogenetic Map4q22UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4521460278882945Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
2303585Bw86Body weight QTL 864body mass (VT:0001259)body weight (CMO:0000012)41467806559678065Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41081417091360527Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44043338885433388Rat
61475Aia2Adjuvant induced arthritis QTL 25.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)43950527573892441Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)450119848146803430Rat
1331807Rf31Renal function QTL 312.988urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)43952426474726312Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711443291360801Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)457114432102114432Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)456698790126192555Rat
2313401Anxrr27Anxiety related response QTL 27aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)41793350862933508Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)439524264116179656Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)457486946102486946Rat
1358203Stl19Serum triglyceride level QTL 192.80.002blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829465958103Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)445456990146803430Rat
61336Bp21Blood pressure QTL 214.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711470578881294Rat
61412Pia2Pristane induced arthritis QTL 23.9joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)42133334362278020Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)45664777678882945Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)45664777678882945Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)45664777678882945Rat
5685012Bmd87Bone mineral density QTL 875.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)45664777678882945Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44345797688457976Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)44043341485433414Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)436303261103194984Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42690728575585128Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42690728575585128Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42949419581006281Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43443048482490359Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)432583980114627242Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:341
Count of miRNA genes:192
Interacting mature miRNAs:237
Transcripts:ENSRNOT00000043902
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.


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 3 43 57 41 19 41 8 10 74 35 41 11 8
Low 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000043902   ⟹   ENSRNOP00000040222
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl458,143,001 - 58,220,332 (-)Ensembl
Rnor_6.0 Ensembl456,820,023 - 56,897,310 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090038   ⟹   ENSRNOP00000074682
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl458,143,001 - 58,220,433 (-)Ensembl
Rnor_6.0 Ensembl456,822,559 - 56,897,338 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000105647   ⟹   ENSRNOP00000090734
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl458,206,301 - 58,220,114 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113944   ⟹   ENSRNOP00000078660
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl458,143,014 - 58,220,337 (-)Ensembl
RefSeq Acc Id: NM_001106587   ⟹   NP_001100057
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2458,143,019 - 58,220,327 (-)NCBI
Rnor_6.0456,820,023 - 56,897,310 (-)NCBI
Rnor_5.0456,587,184 - 56,664,471 (-)NCBI
RGSC_v3.4456,422,446 - 56,499,733 (-)RGD
Celera453,250,776 - 53,328,057 (-)RGD
Sequence:
RefSeq Acc Id: XM_006236186   ⟹   XP_006236248
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2458,142,954 - 58,219,997 (-)NCBI
Rnor_6.0456,820,633 - 56,896,928 (-)NCBI
Rnor_5.0456,587,184 - 56,664,471 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039107279   ⟹   XP_038963207
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2458,164,786 - 58,220,365 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001100057 (Get FASTA)   NCBI Sequence Viewer  
  XP_006236248 (Get FASTA)   NCBI Sequence Viewer  
  XP_038963207 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM15230 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100057   ⟸   NM_001106587
- UniProtKB: D4AAM0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006236248   ⟸   XM_006236186
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K8P2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074682   ⟸   ENSRNOT00000090038
RefSeq Acc Id: ENSRNOP00000040222   ⟸   ENSRNOT00000043902
RefSeq Acc Id: XP_038963207   ⟸   XM_039107279
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000078660   ⟸   ENSRNOT00000113944
RefSeq Acc Id: ENSRNOP00000090734   ⟸   ENSRNOT00000105647

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AAM0-F1-model_v2 AlphaFold D4AAM0 1-923 view protein structure

Transcriptome

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

Promoters
RGD ID:13692927
Promoter ID:EPDNEW_R3452
Type:multiple initiation site
Name:Tnpo3_1
Description:transportin 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R3453  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0456,897,092 - 56,897,152EPDNEW
RGD ID:13692928
Promoter ID:EPDNEW_R3453
Type:initiation region
Name:Tnpo3_2
Description:transportin 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R3452  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0456,897,321 - 56,897,381EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308938 AgrOrtholog
BioCyc Gene G2FUF-45389 BioCyc
Ensembl Genes ENSRNOG00000021758 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000040222.5 UniProtKB/TrEMBL
  ENSRNOP00000074682.2 UniProtKB/TrEMBL
  ENSRNOP00000078660 ENTREZGENE
  ENSRNOP00000078660.1 UniProtKB/TrEMBL
  ENSRNOP00000090734.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000043902.6 UniProtKB/TrEMBL
  ENSRNOT00000090038.2 UniProtKB/TrEMBL
  ENSRNOT00000105647.1 UniProtKB/TrEMBL
  ENSRNOT00000113944 ENTREZGENE
  ENSRNOT00000113944.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  Exportin-1/Importin-b-like UniProtKB/TrEMBL
KEGG Report rno:296954 UniProtKB/TrEMBL
NCBI Gene 296954 ENTREZGENE
Pfam Xpo1 UniProtKB/TrEMBL
PhenoGen Tnpo3 PhenoGen
Superfamily-SCOP ARM-type_fold UniProtKB/TrEMBL
UniProt A0A0G2K8P2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AEC0_RAT UniProtKB/TrEMBL
  A0A8I6G251_RAT UniProtKB/TrEMBL
  D4AAM0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Tnpo3  transportin 3  Tnpo3_predicted  transportin 3 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Tnpo3_predicted  transportin 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED