Tg (thyroglobulin) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Tg (thyroglobulin) Rattus norvegicus
Analyze
Symbol: Tg
Name: thyroglobulin
RGD ID: 3848
Description: Enables several functions, including anion binding activity; chaperone binding activity; and identical protein binding activity. Involved in several processes, including response to lipopolysaccharide; thyroid hormone generation; and transcytosis. Located in several cellular components, including Golgi apparatus; endoplasmic reticulum; and perinuclear region of cytoplasm. Part of protein-containing complex. Used to study hypothyroidism and isolated growth hormone deficiency. Human ortholog(s) of this gene implicated in Graves' disease; autoimmune thyroiditis; goiter; and thyroid dyshormonogenesis 3. Orthologous to human TG (thyroglobulin); PARTICIPATES IN thyroid hormone biosynthetic pathway; autoimmune thyroiditis pathway; INTERACTS WITH 2,2',4,4',5,5'-hexachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC102550922; Tgn; thyroglobulin-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Tgrdw  
Genetic Models: WIC-Tgrdw/Kts
Is Marker For: Strains:   DWH/Iet  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2798,418,293 - 98,603,210 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl798,418,293 - 98,603,210 (+)Ensembl
Rnor_6.07107,467,260 - 107,652,897 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7107,467,260 - 107,652,899 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07107,399,165 - 107,602,400 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47104,035,776 - 104,220,754 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17104,070,005 - 104,254,984 (+)NCBI
Celera794,970,745 - 95,154,294 (+)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Avvedimento VE, etal., Nucleic Acids Res 1984 Apr 25;12(8):3461-72.
2. Ban Y, etal., PLoS One. 2012;7(5):e37501. doi: 10.1371/journal.pone.0037501. Epub 2012 May 25.
3. Ban Y, etal., Proc Natl Acad Sci U S A. 2003 Dec 9;100(25):15119-24. Epub 2003 Dec 1.
4. Belguith-Maalej S, etal., Immunobiology. 2008;213(7):577-83. doi: 10.1016/j.imbio.2008.01.004. Epub 2008 Mar 4.
5. Berg G and Ekholm R, Biochim Biophys Acta. 1975 Apr 29;386(2):422-31.
6. Botta R, etal., Endocrinology. 2009 Jan;150(1):509-18. doi: 10.1210/en.2008-0953. Epub 2008 Aug 7.
7. Di Jeso B, etal., Biochem J. 2003 Mar 1;370(Pt 2):449-58.
8. Di Lauro R, etal., Eur J Biochem 1985 Apr 1;148(1):7-11.
9. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. GOA data from the GO Consortium
11. Graves PN and Davies TF, Mol Endocrinol 1990 Jan;4(1):155-61.
12. Hishinuma A, etal., Endocrinology 2000 Nov;141(11):4050-5.
13. Hsiao JY, etal., J Clin Endocrinol Metab. 2007 Aug;92(8):3197-201. Epub 2007 Jun 5.
14. Ieiri T, etal., J Clin Invest. 1991 Dec;88(6):1901-5.
15. Jacobson EM, etal., PLoS One. 2011 Apr 29;6(4):e19200. doi: 10.1371/journal.pone.0019200.
16. Kawaoi A J Histochem Cytochem. 1987 Oct;35(10):1137-42.
17. Kim PS, etal., Mol Endocrinol 2000 Dec;14(12):1944-53.
18. Kong YC, etal., J Autoimmun. 2011 Jun 17.
19. Koto M, etal., Jikken Dobutsu. 1988 Jan;37(1):21-30.
20. Kuznetsov G, etal., J Biol Chem. 1994 Sep 16;269(37):22990-5.
21. Marino M, etal., J Endocrinol Invest. 2003 Mar;26(3):222-9.
22. MGD data from the GO Consortium
23. NCBI rat LocusLink and RefSeq merged data July 26, 2002
24. OMIM Disease Annotation Pipeline
25. Pacifico F, etal., Biochimie. 1999 May;81(5):493-6.
26. Pipeline to import KEGG annotations from KEGG into RGD
27. Pipeline to import SMPDB annotations from SMPDB into RGD
28. RGD automated data pipeline
29. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
30. RGD automated import pipeline for gene-chemical interactions
31. Sakai Y, etal., Anat Rec. 2000 May 1;259(1):60-6.
32. Sapin R, etal., Clin Biochem. 2003 Nov;36(8):611-6.
33. Sargsyan E, etal., J Biol Chem 2002 May 10;277(19):17009-15.
34. Stott DI, etal., Clin Exp Immunol. 1988 Aug;73(2):269-75.
35. Submitted by Dr. Daniel Christophe via email
36. Suzuki K and Kohn LD, J Endocrinol. 2006 May;189(2):247-55.
37. Taura M, etal., Acta Endocrinol (Copenh). 1986 Feb;111(2):209-12.
38. Uller RP and Van Herle AJ, J Clin Endocrinol Metab. 1978 May;46(5):747-55.
39. Velez ML, etal., Endocrinology. 2006 Jul;147(7):3260-75. Epub 2006 Apr 20.
Additional References at PubMed
PMID:1508304   PMID:2775280   PMID:3455768   PMID:3803305   PMID:8626858   PMID:9006956   PMID:9707574   PMID:11082042   PMID:12387814   PMID:12782676   PMID:15181011   PMID:15494458  
PMID:16260597   PMID:16260629   PMID:17200118   PMID:17455082   PMID:17714035   PMID:18437010   PMID:19276074   PMID:19716808   PMID:19776016   PMID:20629314   PMID:21619833   PMID:24479877  
PMID:24582622   PMID:26599499   PMID:27321819   PMID:27998776   PMID:31972331   PMID:32025030  


Genomics

Comparative Map Data
Tg
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2798,418,293 - 98,603,210 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl798,418,293 - 98,603,210 (+)Ensembl
Rnor_6.07107,467,260 - 107,652,897 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7107,467,260 - 107,652,899 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07107,399,165 - 107,602,400 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47104,035,776 - 104,220,754 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17104,070,005 - 104,254,984 (+)NCBI
Celera794,970,745 - 95,154,294 (+)NCBICelera
Cytogenetic Map7q34NCBI
TG
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl8132,866,958 - 133,134,903 (+)EnsemblGRCh38hg38GRCh38
GRCh388132,866,943 - 133,134,902 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh378133,879,203 - 134,147,143 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 368133,948,387 - 134,216,325 (+)NCBINCBI36hg18NCBI36
Build 348133,948,386 - 134,216,325NCBI
Celera8130,055,026 - 130,324,401 (+)NCBI
Cytogenetic Map8q24.22NCBI
HuRef8129,197,896 - 129,466,621 (+)NCBIHuRef
CHM1_18133,919,854 - 134,187,744 (+)NCBICHM1_1
Tg
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391566,542,606 - 66,722,570 (+)NCBIGRCm39mm39
GRCm39 Ensembl1566,542,602 - 66,722,570 (+)Ensembl
GRCm381566,670,754 - 66,850,721 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1566,670,753 - 66,850,721 (+)EnsemblGRCm38mm10GRCm38
MGSCv371566,502,332 - 66,682,283 (+)NCBIGRCm37mm9NCBIm37
MGSCv361566,500,461 - 66,680,276 (+)NCBImm8
Celera1568,203,057 - 68,383,403 (+)NCBICelera
Cytogenetic Map15D2NCBI
cM Map1529.3NCBI
Tg
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554617,487,322 - 7,703,363 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554617,487,268 - 7,703,458 (+)NCBIChiLan1.0ChiLan1.0
TG
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.18132,495,516 - 132,764,918 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl8132,495,516 - 132,764,918 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v08129,519,431 - 129,789,699 (+)NCBIMhudiblu_PPA_v0panPan3
TG
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11329,350,726 - 29,597,908 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1329,350,688 - 29,598,040 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1329,323,440 - 29,571,872 (+)NCBI
ROS_Cfam_1.01329,705,326 - 29,954,007 (+)NCBI
UMICH_Zoey_3.11329,431,959 - 29,680,604 (+)NCBI
UNSW_CanFamBas_1.01329,532,359 - 29,781,038 (+)NCBI
UU_Cfam_GSD_1.01329,844,402 - 30,129,590 (+)NCBI
Tg
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244053038,759,400 - 8,970,073 (-)NCBI
SpeTri2.0NW_00493647016,185,557 - 16,396,172 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TG
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl48,158,396 - 8,382,435 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.148,158,395 - 8,382,435 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.248,078,824 - 8,424,733 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TG
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.18127,293,797 - 127,567,218 (+)NCBI
ChlSab1.1 Ensembl8127,293,834 - 127,567,771 (+)Ensembl
Vero_WHO_p1.0NW_02366603912,540,183 - 12,814,478 (-)NCBI
Tg
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473522,864,373 - 23,083,457 (-)NCBI

Position Markers
D7Rat134  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2798,418,639 - 98,418,864 (+)MAPPERmRatBN7.2
Rnor_6.07107,467,607 - 107,467,831NCBIRnor6.0
Rnor_6.07108,722,908 - 108,723,132NCBIRnor6.0
Rnor_5.07107,399,512 - 107,399,736UniSTSRnor5.0
Rnor_5.07108,666,690 - 108,666,914UniSTSRnor5.0
RGSC_v3.47104,036,107 - 104,036,364RGDRGSC3.4
RGSC_v3.47104,036,123 - 104,036,347UniSTSRGSC3.4
RGSC_v3.17104,070,353 - 104,070,577RGD
Celera794,971,092 - 94,971,314UniSTS
RH 3.4 Map7679.4UniSTS
RH 3.4 Map7679.4RGD
RH 2.0 Map7528.0RGD
SHRSP x BN Map758.0RGD
Cytogenetic Map7q33UniSTS
D7Got78  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2798,449,898 - 98,450,068 (+)MAPPERmRatBN7.2
Rnor_6.07107,500,100 - 107,500,269NCBIRnor6.0
Rnor_5.07107,432,005 - 107,432,174UniSTSRnor5.0
RGSC_v3.47104,067,601 - 104,067,771RGDRGSC3.4
RGSC_v3.47104,067,602 - 104,067,771UniSTSRGSC3.4
RGSC_v3.17104,101,832 - 104,102,001RGD
Celera795,002,353 - 95,002,522UniSTS
RH 3.4 Map7676.7UniSTS
RH 3.4 Map7676.7RGD
RH 2.0 Map7527.5RGD
Cytogenetic Map7q33UniSTS
Sla  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2798,536,185 - 98,536,281 (+)MAPPERmRatBN7.2
Rnor_6.07107,585,873 - 107,585,968NCBIRnor6.0
Rnor_5.07107,518,197 - 107,518,292UniSTSRnor5.0
RGSC_v3.47104,153,846 - 104,153,941UniSTSRGSC3.4
Celera795,088,441 - 95,088,536UniSTS
Cytogenetic Map7q33UniSTS
RH132711  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2798,534,567 - 98,534,785 (+)MAPPERmRatBN7.2
Rnor_6.07107,584,255 - 107,584,472NCBIRnor6.0
Rnor_5.07107,516,579 - 107,516,796UniSTSRnor5.0
RGSC_v3.47104,152,228 - 104,152,445UniSTSRGSC3.4
Celera795,086,823 - 95,087,040UniSTS
RH 3.4 Map7681.9UniSTS
Cytogenetic Map7q33UniSTS
RH141175  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2798,535,184 - 98,535,387 (+)MAPPERmRatBN7.2
Rnor_6.07107,584,872 - 107,585,074NCBIRnor6.0
Rnor_5.07107,517,196 - 107,517,398UniSTSRnor5.0
RGSC_v3.47104,152,845 - 104,153,047UniSTSRGSC3.4
Celera795,087,440 - 95,087,642UniSTS
RH 3.4 Map7683.2UniSTS
Cytogenetic Map7q33UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)743747012108555253Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)743747099102228765Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
1300151Bp181Blood pressure QTL 1813.36arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)753612714103945643Rat
2317035Aia16Adjuvant induced arthritis QTL 162.71joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)759238038104238038Rat
1298528Bp169Blood pressure QTL 1690.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)761074194106074194Rat
1559283Emca4Estrogen-induced mammary cancer QTL 43.7mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)762004452101773158Rat
1576303Ept7Estrogen-induced pituitary tumorigenesis QTL 73.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)762004452101773158Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)768938720113886318Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)768938720113886318Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)768938720113886318Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)769736356112729554Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)780221299109401111Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)780221299112308525Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
10450828Scl79Serum cholesterol level QTL 793.50.001blood HDL cholesterol amount (VT:0000184)blood low density lipoprotein cholesterol level (CMO:0000053)789867376101773158Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)793595647106839474Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)794811085116738842Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)794811326116294265Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat


Related Rat Strains
The following Strains have been annotated to Tg


Genetic Models
This gene Tg is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:65
Count of miRNA genes:58
Interacting mature miRNAs:59
Transcripts:ENSRNOT00000009240
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
Medium 1
Low 8 7 15 8 22 5
Below cutoff 2 35 44 36 4 36 8 8 67 27 18 6 8

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001270783 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001270784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_030988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB035201 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB678721 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB678722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB678723 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB679745 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB682738 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB682739 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC120745 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF221622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH002526 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GQ924892 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000185 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M35965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X02318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X06162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000009240   ⟹   ENSRNOP00000009241
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl798,418,293 - 98,603,210 (+)Ensembl
Rnor_6.0 Ensembl7107,467,260 - 107,652,899 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077382   ⟹   ENSRNOP00000070452
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl798,418,293 - 98,603,210 (+)Ensembl
Rnor_6.0 Ensembl7107,467,286 - 107,652,869 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl798,418,293 - 98,425,485 (+)Ensembl
Rnor_6.0 Ensembl7107,467,300 - 107,474,444 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093298   ⟹   ENSRNOP00000076347
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl798,492,306 - 98,603,210 (+)Ensembl
Rnor_6.0 Ensembl7107,542,009 - 107,562,929 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109341   ⟹   ENSRNOP00000082295
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl798,552,474 - 98,603,210 (+)Ensembl
RefSeq Acc Id: NM_001270783   ⟹   NP_001257712
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2798,418,293 - 98,603,210 (+)NCBI
Rnor_6.07107,467,260 - 107,652,897 (+)NCBI
Rnor_5.07107,399,165 - 107,602,400 (+)NCBI
Celera794,970,745 - 95,154,294 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001270784   ⟹   NP_001257713
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2798,418,293 - 98,425,485 (+)NCBI
Rnor_6.07107,467,260 - 107,474,444 (+)NCBI
Rnor_5.07107,399,165 - 107,602,400 (+)NCBI
Celera794,970,745 - 94,977,943 (+)NCBI
Sequence:
RefSeq Acc Id: NM_030988   ⟹   NP_112250
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2798,418,293 - 98,603,210 (+)NCBI
Rnor_6.07107,467,260 - 107,652,897 (+)NCBI
Rnor_5.07107,399,165 - 107,602,400 (+)NCBI
RGSC_v3.47104,035,776 - 104,220,754 (+)RGD
Celera794,970,745 - 95,154,294 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_112250   ⟸   NM_030988
- Peptide Label: isoform 1 precursor
- UniProtKB: G3V6V3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257712   ⟸   NM_001270783
- Peptide Label: isoform 2 precursor
- UniProtKB: A0A0G2JXY8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257713   ⟸   NM_001270784
- Peptide Label: isoform 3 precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000070452   ⟸   ENSRNOT00000077382
RefSeq Acc Id: ENSRNOP00000009241   ⟸   ENSRNOT00000009240
RefSeq Acc Id: ENSRNOP00000076347   ⟸   ENSRNOT00000093298
RefSeq Acc Id: ENSRNOP00000082295   ⟸   ENSRNOT00000109341
Protein Domains
Thyroglobulin type-1

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
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)
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)
ACI/EurMcwi (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
ACI/N (2020)
Visual CSV TAB Printer
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)
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
BBDP/Wor (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
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
BUF/N (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
F344/NRrrc (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
F344/Stm (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
FXLE16/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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)
GK/FarMcwi (2019)
Visual CSV TAB Printer
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)
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
LEW/Crl (2019)
Visual CSV TAB Printer
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)
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
LEW/NCrlBR (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
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
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)
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
MNS/Gib (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
MR/N (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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: 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)
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: 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)
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/OlalpcvMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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: 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)
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/JrHsdMcwi (2019)
Visual CSV TAB Printer
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)
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/RijCrl (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
WKY/NCrl (2019)
Visual CSV TAB Printer
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)
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/NHsd (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
WN/N (2020)
Visual CSV TAB Printer
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:3848 AgrOrtholog
Ensembl Genes ENSRNOG00000006104 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000009241 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070452 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000076347 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009240 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000077382 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000083264 ENTREZGENE
  ENSRNOT00000093298 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.1820 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  4.10.800.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AB_hydrolase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CarbesteraseB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Carboxylesterase_B_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thyroglobulin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thyroglobulin_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thyroglobulin_1_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr-kin_ephrin_A/B_rcpt-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24826 UniProtKB/TrEMBL
NCBI Gene 24826 ENTREZGENE
Pfam COesterase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ephrin_rec_like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thyroglobulin_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tg PhenoGen
PIRSF Thyroglobulin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CARBOXYLESTERASE_B_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THYROGLOBULIN_1_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THYROGLOBULIN_1_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00211 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53474 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57610 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JXY8 ENTREZGENE, UniProtKB/TrEMBL
  A0A1W2Q6Q9_RAT UniProtKB/TrEMBL
  G3V6V3 ENTREZGENE, UniProtKB/TrEMBL
  G5EN02_RAT UniProtKB/TrEMBL
  G5EN65_RAT UniProtKB/TrEMBL
  G5ENA6_RAT UniProtKB/TrEMBL
  G5ENA7_RAT UniProtKB/TrEMBL
  P06882 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q9JKY6 UniProtKB/Swiss-Prot
  Q9JM94 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Tg  thyroglobulin  LOC102550922  thyroglobulin-like  Data Merged 737654 PROVISIONAL
2013-12-18 LOC102550922  thyroglobulin-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2002-06-10 Tg  Thyroglobulin      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease G2320R mutation causes hypothyroidism in the WIC-rdw rat, a Wistar-Imamichi strain derived hereditary hypothyroid variant 730133
gene_other The genomic region containing this gene has been resequenced in the Fisher 344 rat cell line PCCl3 by Dr. Daniel Christophe's group at Universite Libre de Bruxelles. The unknown sequence between genomic positions 104042649 and 104042698 has now been determined to be aaagatttgagTTAAAATTCTCTTTATCAGCCTTTATCATTAATTACTATGTTTGtcttgtcttctt 2313248