Tpt1 (tumor protein, translationally-controlled 1) - Rat Genome Database

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Gene: Tpt1 (tumor protein, translationally-controlled 1) Rattus norvegicus
Analyze
Symbol: Tpt1
Name: tumor protein, translationally-controlled 1
RGD ID: 621623
Description: Predicted to enable calcium ion binding activity. Involved in spermatogenesis. Predicted to be located in several cellular components, including microtubule cytoskeleton; multivesicular body; and nucleoplasm. Predicted to be active in cytoplasm. Orthologous to several human genes including TPT1 (tumor protein, translationally-controlled 1); INTERACTS WITH 3,3',4,4',5-pentachlorobiphenyl; 3,4,5,3',4',5'-Hexachlorobiphenyl; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: lens epithelial protein; MGC105360; TCTP; translationally-controlled tumor protein
RGD Orthologs
Human
Mouse
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
mRatBN7.21551,156,728 - 51,159,629 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1551,146,154 - 51,159,625 (+)Ensembl
Rnor_6.01557,891,680 - 57,894,504 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1557,891,680 - 57,894,504 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01561,598,787 - 61,601,611 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41556,752,464 - 56,755,288 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11556,768,246 - 56,771,068 (+)NCBI
Celera1550,783,471 - 50,786,295 (+)NCBICelera
Cytogenetic Map15q11NCBI
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
(Z)-3-butylidenephthalide  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,4,5,3',4',5'-Hexachlorobiphenyl  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
aminoglutethimide  (ISO)
ammonium chloride  (EXP)
aristolochic acid  (ISO)
Aroclor 1254  (ISO)
arsenous acid  (ISO)
artesunate  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (EXP)
bisphenol A  (EXP,ISO)
bufalin  (ISO)
cadmium dichloride  (ISO)
chlorogenic acid  (ISO)
chloropicrin  (ISO)
choline  (ISO)
Cuprizon  (EXP)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
diuron  (EXP)
doxorubicin  (ISO)
ethanol  (ISO)
etoposide  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP,ISO)
ivermectin  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
miconazole  (ISO)
Osajin  (ISO)
ouabain  (ISO)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
Pomiferin  (ISO)
potassium dichromate  (ISO)
pterostilbene  (ISO)
puerarin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
Rosavin  (ISO)
simvastatin  (EXP)
Soman  (EXP)
sunitinib  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:11156187   PMID:11368327   PMID:11598139   PMID:12477932   PMID:15162379   PMID:15319436   PMID:15489334   PMID:15958728   PMID:16548883   PMID:21076177   PMID:22658674   PMID:23533145  
PMID:24006456   PMID:26266488   PMID:27783042   PMID:29676587   PMID:31320615   PMID:32174219  


Genomics

Comparative Map Data
Tpt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21551,156,728 - 51,159,629 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1551,146,154 - 51,159,625 (+)Ensembl
Rnor_6.01557,891,680 - 57,894,504 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1557,891,680 - 57,894,504 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01561,598,787 - 61,601,611 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41556,752,464 - 56,755,288 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11556,768,246 - 56,771,068 (+)NCBI
Celera1550,783,471 - 50,786,295 (+)NCBICelera
Cytogenetic Map15q11NCBI
TPT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1345,333,471 - 45,341,284 (-)EnsemblGRCh38hg38GRCh38
GRCh381345,333,471 - 45,341,183 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371345,907,606 - 45,915,318 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361344,809,304 - 44,813,297 (-)NCBINCBI36hg18NCBI36
Build 341344,809,303 - 44,813,297NCBI
Celera1326,967,432 - 26,971,425 (-)NCBI
Cytogenetic Map13q14.13NCBI
HuRef1326,712,445 - 26,716,438 (-)NCBIHuRef
CHM1_11345,878,878 - 45,882,871 (-)NCBICHM1_1
Tpt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391476,082,472 - 76,085,743 (+)NCBIGRCm39mm39
GRCm39 Ensembl1476,082,533 - 76,085,965 (+)Ensembl
GRCm381475,845,256 - 75,848,303 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1475,845,093 - 75,848,525 (+)EnsemblGRCm38mm10GRCm38
MGSCv371476,245,063 - 76,248,110 (+)NCBIGRCm37mm9NCBIm37
MGSCv361474,579,486 - 74,582,453 (+)NCBImm8
Celera1473,346,596 - 73,349,642 (+)NCBICelera
Cytogenetic Map14D3NCBI
cM Map1440.29NCBI
TPT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13197,562,788 - 197,567,290 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3197,562,788 - 197,567,290 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01326,504,747 - 26,509,160 (-)NCBIMhudiblu_PPA_v0panPan3
TPT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1225,711,076 - 5,715,254 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl225,711,071 - 5,715,069 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha225,700,382 - 5,704,539 (+)NCBI
ROS_Cfam_1.0225,829,066 - 5,833,209 (+)NCBI
UMICH_Zoey_3.1225,611,060 - 5,615,216 (+)NCBI
UNSW_CanFamBas_1.0225,674,049 - 5,678,187 (+)NCBI
UU_Cfam_GSD_1.0225,679,693 - 5,683,850 (+)NCBI
Tpt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945155,519,429 - 155,523,389 (-)NCBI
SpeTri2.0NW_0049367911,439,997 - 1,443,959 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TPT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1121,929,176 - 21,933,786 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11121,929,294 - 21,932,905 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TPT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1323,428,523 - 23,432,846 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl323,429,044 - 23,433,108 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605720,628,861 - 20,633,369 (+)NCBIVero_WHO_p1.0
Tpt1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247489,657,041 - 9,660,924 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH141654  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21551,159,762 - 51,159,965 (+)MAPPERmRatBN7.2
Rnor_6.01557,894,643 - 57,894,845NCBIRnor6.0
Rnor_5.01561,601,750 - 61,601,952UniSTSRnor5.0
RGSC_v3.41556,755,427 - 56,755,629UniSTSRGSC3.4
Celera1550,786,434 - 50,786,636UniSTS
Cytogenetic Map15q11UniSTS
MARC_2026-2027:991932441:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2119,107,509 - 19,107,862 (+)MAPPERmRatBN7.2
Rnor_6.0120,116,022 - 20,116,374NCBIRnor6.0
Rnor_5.0121,603,371 - 21,603,723UniSTSRnor5.0
RGSC_v3.4119,563,457 - 19,563,809UniSTSRGSC3.4
Celera117,499,214 - 17,499,566UniSTS
Cytogenetic Map1p12UniSTS
Cytogenetic Map15q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
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
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
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat
724545Niddm54Non-insulin dependent diabetes mellitus QTL 540.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)155079449473699215Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:163
Count of miRNA genes:130
Interacting mature miRNAs:145
Transcripts:ENSRNOT00000001383
Prediction methods:Microtar, Miranda, Rnahybrid, 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 9 41 61 39 17 33 1 4 66 27 32 7 1
Medium 8 18 8 2 8 7 7 8 8 9 4 7
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005493684 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC086358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210153 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210845 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217485 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220913 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221184 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221191 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221220 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221227 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221503 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221524 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221696 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221929 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221991 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222296 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222704 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223078 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223294 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223612 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224742 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227321 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227806 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228514 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228624 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229093 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229217 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229346 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230785 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231778 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232593 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234442 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234781 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234990 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ235307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U20525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000001383   ⟹   ENSRNOP00000001383
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1551,156,708 - 51,159,625 (+)Ensembl
Rnor_6.0 Ensembl1557,891,680 - 57,894,504 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000106386   ⟹   ENSRNOP00000082883
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1551,146,154 - 51,159,625 (+)Ensembl
RefSeq Acc Id: NM_053867   ⟹   NP_446319
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21551,156,800 - 51,159,624 (+)NCBI
Rnor_6.01557,891,680 - 57,894,504 (+)NCBI
Rnor_5.01561,598,787 - 61,601,611 (+)NCBI
RGSC_v3.41556,752,464 - 56,755,288 (+)RGD
Celera1550,783,471 - 50,786,295 (+)RGD
Sequence:
RefSeq Acc Id: XR_005493684
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21551,156,728 - 51,159,629 (+)NCBI
Protein Sequences
Protein RefSeqs NP_446319 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA62507 (Get FASTA)   NCBI Sequence Viewer  
  AAH86358 (Get FASTA)   NCBI Sequence Viewer  
  EDM02301 (Get FASTA)   NCBI Sequence Viewer  
  P63029 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446319   ⟸   NM_053867
- UniProtKB: P63029 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000001383   ⟸   ENSRNOT00000001383
RefSeq Acc Id: ENSRNOP00000082883   ⟸   ENSRNOT00000106386
Protein Domains
TCTP

Transcriptome

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

Promoters
RGD ID:13699835
Promoter ID:EPDNEW_R10358
Type:multiple initiation site
Name:Tpt1_1
Description:tumor protein, translationally-controlled 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01557,891,651 - 57,891,711EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
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/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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Sequenced By: MCW
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
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
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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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
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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Sequenced By: MCW
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
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
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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Sequenced By: MCW
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
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
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
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
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
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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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Sequenced By: MCW
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/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
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/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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Sequenced By: MCW
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/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
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
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
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
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
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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Sequenced By: MCW
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
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
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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Sequenced By: MCW
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
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
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
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
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
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
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/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
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/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
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/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
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
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621623 AgrOrtholog
Ensembl Genes ENSRNOG00000001049 Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000001383 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000001383 UniProtKB/Swiss-Prot
Gene3D-CATH 2.170.150.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7303675 IMAGE-MGC_LOAD
InterPro Mss4-like_sf UniProtKB/Swiss-Prot
  Mss4/transl-control_tumour UniProtKB/Swiss-Prot
  TCTP UniProtKB/Swiss-Prot
  Translation_control_tumour_CS UniProtKB/Swiss-Prot
  Translational_control_tumour_p UniProtKB/Swiss-Prot
KEGG Report rno:116646 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105360 IMAGE-MGC_LOAD
NCBI Gene 116646 ENTREZGENE
PANTHER PTHR11991 UniProtKB/Swiss-Prot
Pfam TCTP UniProtKB/Swiss-Prot
PhenoGen Tpt1 PhenoGen
PRINTS TCTPROTEIN UniProtKB/Swiss-Prot
PROSITE TCTP_1 UniProtKB/Swiss-Prot
  TCTP_2 UniProtKB/Swiss-Prot
  TCTP_3 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF51316 UniProtKB/Swiss-Prot
UniProt P63029 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary P14701 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Tpt1  tumor protein, translationally-controlled 1      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Tpt1  tumor protein, translationally-controlled 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression enriched in spermatogonia; present in Leydig, resident macrophage, peritubular and Sertoli cells 724749