Tnpo1 (transportin 1) - Rat Genome Database

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Gene: Tnpo1 (transportin 1) Rattus norvegicus
Analyze
Symbol: Tnpo1
Name: transportin 1
RGD ID: 1308372
Description: Predicted to enable nuclear import signal receptor activity and nuclear localization sequence binding activity. Predicted to be involved in protein import into nucleus. Predicted to be active in cytoplasm and nucleus. Orthologous to human TNPO1 (transportin 1); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC309126; transportin-1
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
mRatBN7.2230,207,529 - 30,300,162 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl230,211,510 - 30,300,375 (-)Ensembl
Rnor_6.0229,056,219 - 29,126,882 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl229,056,219 - 29,121,104 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0248,238,550 - 48,308,427 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4229,482,093 - 29,539,145 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1229,401,327 - 29,490,924 (-)NCBI
Celera226,240,332 - 26,302,645 (-)NCBICelera
Cytogenetic Map2q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
1-nitropyrene  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
acrolein  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
aristolochic acid  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
cadmium sulfate  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dicrotophos  (ISO)
dorsomorphin  (ISO)
elemental selenium  (ISO)
entinostat  (ISO)
enzyme inhibitor  (ISO)
flutamide  (EXP)
folic acid  (ISO)
fulvestrant  (ISO)
hydrogen peroxide  (ISO)
ionomycin  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
ketamine  (EXP)
lipopolysaccharide  (ISO)
manumycin A  (ISO)
methamphetamine  (EXP)
Methylazoxymethanol acetate  (EXP)
methylmercury chloride  (ISO)
microcystin-LR  (ISO)
N-acetyl-L-cysteine  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
PCB138  (EXP)
pentachlorophenol  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
sodium arsenite  (EXP)
Soman  (EXP)
sunitinib  (ISO)
tamibarotene  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone enanthate  (ISO)
thioacetamide  (EXP)
topotecan  (EXP)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
Triptolide  (ISO)
troglitazone  (ISO)
uranium atom  (ISO)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)
nucleus  (IBA)

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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9144189   PMID:12477932   PMID:18570454   PMID:22442722   PMID:22658674   PMID:22681889   PMID:25002582  


Genomics

Comparative Map Data
Tnpo1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2230,207,529 - 30,300,162 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl230,211,510 - 30,300,375 (-)Ensembl
Rnor_6.0229,056,219 - 29,126,882 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl229,056,219 - 29,121,104 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0248,238,550 - 48,308,427 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4229,482,093 - 29,539,145 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1229,401,327 - 29,490,924 (-)NCBI
Celera226,240,332 - 26,302,645 (-)NCBICelera
Cytogenetic Map2q12NCBI
TNPO1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38572,816,661 - 72,914,388 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl572,816,312 - 72,916,733 (+)EnsemblGRCh38hg38GRCh38
GRCh37572,112,488 - 72,210,215 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36572,148,174 - 72,245,971 (+)NCBINCBI36hg18NCBI36
Celera568,007,813 - 68,105,601 (+)NCBI
Cytogenetic Map5q13.2NCBI
HuRef567,317,777 - 67,415,712 (+)NCBIHuRef
CHM1_1571,545,168 - 71,642,989 (+)NCBICHM1_1
T2T-CHM13v2.0573,297,810 - 73,395,474 (+)NCBI
Tnpo1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391398,975,527 - 99,063,064 (-)NCBIGRCm39mm39
GRCm39 Ensembl1398,975,527 - 99,062,892 (-)Ensembl
GRCm381398,839,019 - 98,926,384 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1398,839,019 - 98,926,384 (-)EnsemblGRCm38mm10GRCm38
MGSCv371399,612,036 - 99,696,339 (-)NCBIGRCm37mm9NCBIm37
MGSCv361399,942,895 - 100,026,500 (-)NCBImm8
Celera13102,502,817 - 102,586,946 (-)NCBICelera
Cytogenetic Map13D1NCBI
cM Map1352.24NCBI
Tnpo1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542527,666,091 - 27,748,920 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542527,666,091 - 27,748,920 (-)NCBIChiLan1.0ChiLan1.0
TNPO1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1543,001,210 - 43,098,077 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl543,001,210 - 43,098,077 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0542,404,013 - 42,501,748 (-)NCBIMhudiblu_PPA_v0panPan3
TNPO1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1255,795,737 - 55,859,366 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl255,799,907 - 55,851,213 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha252,730,047 - 52,826,981 (+)NCBI
ROS_Cfam_1.0256,278,862 - 56,375,623 (+)NCBI
ROS_Cfam_1.0 Ensembl256,278,940 - 56,370,542 (+)Ensembl
UMICH_Zoey_3.1253,338,799 - 53,435,381 (+)NCBI
UNSW_CanFamBas_1.0254,107,115 - 54,203,851 (+)NCBI
UU_Cfam_GSD_1.0255,032,870 - 55,094,744 (+)NCBI
Tnpo1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213187,147,529 - 187,238,494 (+)NCBI
SpeTri2.0NW_0049365493,620,479 - 3,711,382 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNPO1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1649,048,686 - 49,151,922 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11649,048,686 - 49,151,926 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21653,229,707 - 53,296,875 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TNPO1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1467,158,072 - 67,255,843 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl467,158,101 - 67,248,256 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604915,924,492 - 16,018,409 (+)NCBIVero_WHO_p1.0
Tnpo1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249051,909,405 - 1,992,484 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
AU021749  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2230,207,778 - 30,207,985 (+)MAPPERmRatBN7.2
Rnor_6.0229,056,469 - 29,056,675NCBIRnor6.0
Rnor_5.0248,238,800 - 48,239,006UniSTSRnor5.0
RGSC_v3.4229,477,539 - 29,477,745UniSTSRGSC3.4
Celera226,240,582 - 26,240,788UniSTS
Cytogenetic Map2q12UniSTS
BE113776  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2230,211,623 - 30,211,715 (+)MAPPERmRatBN7.2
Rnor_6.0229,060,314 - 29,060,405NCBIRnor6.0
Rnor_5.0248,242,645 - 48,242,736UniSTSRnor5.0
RGSC_v3.4229,481,384 - 29,481,475UniSTSRGSC3.4
Celera226,244,427 - 26,244,518UniSTS
Cytogenetic Map2q12UniSTS
BE120883  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2230,208,110 - 30,208,264 (+)MAPPERmRatBN7.2
Rnor_6.0229,056,801 - 29,056,954NCBIRnor6.0
Rnor_5.0248,239,132 - 48,239,285UniSTSRnor5.0
RGSC_v3.4229,477,871 - 29,478,024UniSTSRGSC3.4
Celera226,240,914 - 26,241,067UniSTS
RH 3.4 Map254.1UniSTS
Cytogenetic Map2q12UniSTS
RH137682  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2230,212,559 - 30,212,766 (+)MAPPERmRatBN7.2
Rnor_6.0229,061,250 - 29,061,456NCBIRnor6.0
Rnor_5.0248,243,581 - 48,243,787UniSTSRnor5.0
RGSC_v3.4229,482,320 - 29,482,526UniSTSRGSC3.4
Celera226,245,363 - 26,245,569UniSTS
RH 3.4 Map253.4UniSTS
Cytogenetic Map2q12UniSTS
UniSTS:237090  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2230,207,789 - 30,207,904 (+)MAPPERmRatBN7.2
Rnor_6.0229,056,480 - 29,056,594NCBIRnor6.0
Rnor_5.0248,238,811 - 48,238,925UniSTSRnor5.0
RGSC_v3.4229,477,550 - 29,477,664UniSTSRGSC3.4
Celera226,240,593 - 26,240,707UniSTS
Cytogenetic Map2q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631682Bp115Blood pressure QTL 1154.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2137410502Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141244106Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)25873687102844969Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2788777242804738Rat
738012Anxrr3Anxiety related response QTL 33.8exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)2902351954023519Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21159110056591100Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)21185206249003364Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21649174061491740Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21907682564076825Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22030467265304672Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22066244865662448Rat
10402051Gdil2Gastrointestinal dilation QTL 2enteric ganglion morphology trait (VT:0001045)length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)22490385374786777Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)22691781781754745Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22691781781754745Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22691781781754745Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226917817127469484Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226917817136917119Rat
1331764Bp205Blood pressure QTL 2053.476arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22699957143154682Rat
1643006Pain1Pain QTL 13.630.005mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)22699957148268661Rat
9590095Sffal3Serum free fatty acids level QTL 36.780.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)22715716072157160Rat
1300160Hrtrt3Heart rate QTL 33.62heart pumping trait (VT:2000009)absolute change in heart rate (CMO:0000534)22997159351729300Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:283
Count of miRNA genes:192
Interacting mature miRNAs:223
Transcripts:ENSRNOT00000020543
Prediction methods:Microtar, Miranda, Rnahybrid
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 40 54 38 19 38 8 8 74 35 41 11 8
Low 3 3 3 3 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020543   ⟹   ENSRNOP00000020543
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl230,213,959 - 30,267,558 (-)Ensembl
Rnor_6.0 Ensembl229,056,219 - 29,121,104 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099589   ⟹   ENSRNOP00000093625
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl230,214,903 - 30,300,375 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110663   ⟹   ENSRNOP00000092200
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl230,211,510 - 30,269,612 (-)Ensembl
RefSeq Acc Id: NM_001100692   ⟹   NP_001094162
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2230,207,529 - 30,269,385 (-)NCBI
Rnor_6.0229,056,219 - 29,121,104 (-)NCBI
Rnor_5.0248,238,550 - 48,308,427 (-)NCBI
Celera226,240,332 - 26,302,645 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231839   ⟹   XP_006231901
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2230,211,191 - 30,269,676 (-)NCBI
Rnor_6.0229,056,219 - 29,121,820 (-)NCBI
Rnor_5.0248,238,550 - 48,308,427 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231840   ⟹   XP_006231902
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2230,211,191 - 30,275,800 (-)NCBI
Rnor_6.0229,056,219 - 29,126,882 (-)NCBI
Rnor_5.0248,238,550 - 48,308,427 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008760668   ⟹   XP_008758890
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2230,211,191 - 30,269,526 (-)NCBI
Rnor_6.0229,056,219 - 29,121,820 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039102143   ⟹   XP_038958071
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2230,207,529 - 30,300,162 (-)NCBI
RefSeq Acc Id: XM_039102144   ⟹   XP_038958072
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2230,211,191 - 30,287,573 (-)NCBI
RefSeq Acc Id: XM_039102145   ⟹   XP_038958073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2230,211,191 - 30,299,305 (-)NCBI
RefSeq Acc Id: XM_039102146   ⟹   XP_038958074
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2230,211,191 - 30,297,257 (-)NCBI
RefSeq Acc Id: XR_005500275
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2230,215,683 - 30,300,162 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001094162   ⟸   NM_001100692
- UniProtKB: F1LQP9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006231902   ⟸   XM_006231840
- Peptide Label: isoform X2
- UniProtKB: F1LQP9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006231901   ⟸   XM_006231839
- Peptide Label: isoform X2
- UniProtKB: F1LQP9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008758890   ⟸   XM_008760668
- Peptide Label: isoform X2
- UniProtKB: F1LQP9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000020543   ⟸   ENSRNOT00000020543
RefSeq Acc Id: XP_038958071   ⟸   XM_039102143
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038958073   ⟸   XM_039102145
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038958074   ⟸   XM_039102146
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038958072   ⟸   XM_039102144
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000092200   ⟸   ENSRNOT00000110663
RefSeq Acc Id: ENSRNOP00000093625   ⟸   ENSRNOT00000099589

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LQP9-F1-model_v2 AlphaFold F1LQP9 1-890 view protein structure

Transcriptome

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


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)
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 (2020)
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/SsN (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
BUF/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
BXH2/CubMcwi (2020)
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
BXH3/CubMcwi (2020)
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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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)
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/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)
Visual CSV TAB Printer
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)
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (2020)
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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (2020)
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
LE/Stm (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
LEW/Crl (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
LEXF10A/StmMcwi (2020)
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
LEXF11/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
MR/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
MWF/Hsd (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
PVG/Seac (2019)
Visual CSV TAB Printer
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)
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
SHRSP/A3NCrl (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
SR/JrHsd (2020)
Visual CSV TAB Printer
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)
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
WAG/RijCrl (2020)
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
WKY/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
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)
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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 29075458 29075459 G T snv SR/JrHsd (RGD), LEW/NCrlBR (RGD)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 48257789 48257790 G T snv SR/JrHsd (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308372 AgrOrtholog
BioCyc Gene G2FUF-54706 BioCyc
Ensembl Genes ENSRNOG00000014999 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020543 ENTREZGENE
  ENSRNOP00000020543.8 UniProtKB/TrEMBL
  ENSRNOP00000092200 ENTREZGENE
  ENSRNOP00000092200.1 UniProtKB/TrEMBL
  ENSRNOP00000093625.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020543 ENTREZGENE
  ENSRNOT00000020543.8 UniProtKB/TrEMBL
  ENSRNOT00000099589.1 UniProtKB/TrEMBL
  ENSRNOT00000110663 ENTREZGENE
  ENSRNOT00000110663.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7109997 IMAGE-MGC_LOAD
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  Importin-beta_N UniProtKB/TrEMBL
  Importin_beta UniProtKB/TrEMBL
KEGG Report rno:309126 UniProtKB/TrEMBL
MGC_CLONE MGC:105836 IMAGE-MGC_LOAD
NCBI Gene 309126 ENTREZGENE
PANTHER PTHR10527 UniProtKB/TrEMBL
Pfam IBN_N UniProtKB/TrEMBL
PhenoGen Tnpo1 PhenoGen
PROSITE IMPORTIN_B_NT UniProtKB/TrEMBL
SMART IBN_N UniProtKB/TrEMBL
Superfamily-SCOP ARM-type_fold UniProtKB/TrEMBL
UniProt A0A8I6AG33_RAT UniProtKB/TrEMBL
  A0A8I6AK79_RAT UniProtKB/TrEMBL
  F1LQP9 ENTREZGENE, UniProtKB/TrEMBL
  Q5D008_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Tnpo1  transportin 1  Tnpo1_predicted  transportin 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Tnpo1_predicted  transportin 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED