Tgfbr3 (transforming growth factor beta receptor 3) - Rat Genome Database

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Gene: Tgfbr3 (transforming growth factor beta receptor 3) Rattus norvegicus
Analyze
Symbol: Tgfbr3
Name: transforming growth factor beta receptor 3
RGD ID: 61821
Description: Enables several functions, including activin binding activity; growth factor binding activity; and heparin binding activity. Involved in several processes, including animal organ regeneration; regulation of transforming growth factor beta receptor signaling pathway; and transforming growth factor beta receptor complex assembly. Located in cytoplasm; extracellular matrix; and extracellular space. Is integral component of plasma membrane. Part of receptor complex. Orthologous to human TGFBR3 (transforming growth factor beta receptor 3); PARTICIPATES IN transforming growth factor-beta Smad dependent signaling pathway; INTERACTS WITH 17beta-estradiol; acetamide; ammonium chloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: betaglycan; TGF-beta receptor type 3; TGF-beta receptor type III; TGFR-3; transforming growth factor beta receptor III; transforming growth factor beta receptor type 3; transforming growth factor, beta receptor 3; transforming growth factor, beta receptor III
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2142,489,397 - 2,665,383 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl142,489,397 - 2,663,341 (+)Ensembl
Rnor_6.0143,506,416 - 3,680,508 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl143,506,339 - 3,682,545 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0143,509,601 - 3,683,814 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4143,051,039 - 3,240,286 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1143,051,038 - 3,240,286 (+)NCBI
Celera142,505,821 - 2,679,576 (+)NCBICelera
Cytogenetic Map14p22NCBI
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
(-)-epigallocatechin 3-gallate  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-hydroxypropanoic acid  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-vinylcyclohexene dioxide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
aristolochic acid  (ISO)
arsenous acid  (ISO)
azathioprine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-naphthoflavone  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butan-1-ol  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
choline  (ISO)
cisplatin  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazepam  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP,ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
fulvestrant  (EXP)
furan  (EXP)
genistein  (ISO)
hydroquinone  (ISO)
indometacin  (EXP)
L-methionine  (ISO)
lead diacetate  (EXP)
leflunomide  (ISO)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
N-nitrosodiethylamine  (EXP)
nitrofen  (EXP)
ouabain  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP,ISO)
picrotoxin  (EXP)
potassium chromate  (ISO)
progesterone  (EXP)
rac-lactic acid  (ISO)
ramipril  (EXP)
resveratrol  (EXP)
rotenone  (EXP)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
selenium atom  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
streptozocin  (EXP)
styrene  (ISO)
styrene oxide  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
angiogenesis  (IBA)
animal organ regeneration  (IEP)
blastocyst development  (ISO)
blood vessel development  (ISO)
blood vessel remodeling  (ISO)
BMP signaling pathway  (ISO)
cardiac epithelial to mesenchymal transition  (ISO)
cardiac muscle cell proliferation  (ISO)
cell migration  (IBA)
collagen metabolic process  (ISO)
definitive erythrocyte differentiation  (ISO)
definitive hemopoiesis  (ISO)
epicardium-derived cardiac fibroblast cell development  (ISO)
epithelial to mesenchymal transition  (IBA,ISO)
heart trabecula formation  (ISO)
heart trabecula morphogenesis  (ISO)
immune response  (ISO)
in utero embryonic development  (ISO)
intracellular signal transduction  (ISO)
liver development  (ISO)
muscular septum morphogenesis  (ISO)
negative regulation of apoptotic process involved in morphogenesis  (ISO)
negative regulation of cellular component movement  (ISO)
negative regulation of epithelial cell migration  (ISO)
negative regulation of epithelial cell proliferation  (ISO)
negative regulation of epithelial to mesenchymal transition  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of transforming growth factor beta receptor signaling pathway  (IDA)
osteoblast differentiation  (ISO)
outflow tract morphogenesis  (ISO)
pathway-restricted SMAD protein phosphorylation  (ISO)
positive regulation of BMP signaling pathway  (ISO)
positive regulation of cardiac muscle cell proliferation  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of NF-kappaB transcription factor activity  (ISO)
positive regulation of transforming growth factor beta receptor signaling pathway  (IMP,ISO)
protein-containing complex assembly  (IDA)
regulation of ERK1 and ERK2 cascade  (ISO)
regulation of JNK cascade  (ISO)
regulation of protein binding  (IDA)
regulation of transforming growth factor beta receptor signaling pathway  (IBA)
response to follicle-stimulating hormone  (ISO)
response to hypoxia  (IEP)
response to luteinizing hormone  (ISO)
response to prostaglandin E  (ISO)
roof of mouth development  (ISO)
secondary palate development  (ISO)
signal transduction  (NAS)
transforming growth factor beta receptor complex assembly  (IMP)
transforming growth factor beta receptor signaling pathway  (IBA,ISO,TAS)
vasculogenesis  (IBA,ISO)
vasculogenesis involved in coronary vascular morphogenesis  (ISO)
ventricular cardiac muscle tissue morphogenesis  (ISO)
ventricular compact myocardium morphogenesis  (ISO)
ventricular septum morphogenesis  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Andres JL, etal., J Biol Chem. 1991 Dec 5;266(34):23282-7.
2. Andres JL, etal., J Biol Chem. 1992 Mar 25;267(9):5927-30.
3. Andres JL, etal., J Cell Biol. 1989 Dec;109(6 Pt 1):3137-45.
4. Boyer AS and Runyan RB, Dev Dyn. 2001 Aug;221(4):454-9.
5. Casagrandi D, etal., Mol Hum Reprod. 2003 Apr;9(4):199-203.
6. Chapman SC and Woodruff TK, Endocrinology 2003 Dec;144(12):5640-9. Epub 2003 Sep 18.
7. Chapman SC, etal., Mol Cell Endocrinol. 2002 Oct 31;196(1-2):79-93.
8. Copland JA, etal., Oncogene. 2003 Sep 11;22(39):8053-62.
9. Farnworth PG, etal., J Endocrinol. 2006 Mar;188(3):451-65.
10. Florio P, etal., Eur J Endocrinol. 2005 Feb;152(2):277-84.
11. Gao J, etal., J Periodontal Res. 1999 Feb;34(2):113-22.
12. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
13. GOA data from the GO Consortium
14. Hartner A, etal., J Mol Med. 2003 Jan;81(1):32-42. Epub 2002 Dec 14.
15. Lewis KA, etal., Nature. 2000 Mar 23;404(6776):411-4.
16. Lin HY, etal., J Biol Chem. 1995 Feb 10;270(6):2747-54.
17. Lopez-Casillas F, etal., Cell 1991 Nov 15;67(4):785-95.
18. Lopez-Casillas F, etal., J Cell Biol. 1994 Feb;124(4):557-68.
19. MacConell LA, etal., Endocrinology 2002 Mar;143(3):1066-75.
20. MGD data from the GO Consortium
21. Moren A, etal., Biochem Biophys Res Commun. 1992 Nov 30;189(1):356-62.
22. NCBI rat LocusLink and RefSeq merged data July 26, 2002
23. Nishikawa Y, etal., J Cell Physiol. 1998 Sep;176(3):612-23.
24. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
25. RGD automated data pipeline
26. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
27. RGD automated import pipeline for gene-chemical interactions
28. Shi Y and Massague J, Cell. 2003 Jun 13;113(6):685-700.
29. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
30. Vicencio AG, etal., J Appl Physiol 2002 Sep;93(3):1123-30.
31. Wang XF, etal., Cell 1991 Nov 15;67(4):797-805.
32. Woszczyk D, etal., Med Sci Monit. 2004 Jan;10(1):CR33-7.
Additional References at PubMed
PMID:9659379   PMID:9921650   PMID:11157754   PMID:11546783   PMID:12773577   PMID:12958365   PMID:14557487   PMID:15292974   PMID:15878966   PMID:16413747   PMID:16502470   PMID:16886151  
PMID:17295310   PMID:17636036   PMID:17704211   PMID:17823118   PMID:17999987   PMID:18184661   PMID:18236212   PMID:19019833   PMID:19056867   PMID:19199708   PMID:19372236   PMID:21402931  
PMID:22960625   PMID:23376485   PMID:25359088   PMID:25382630   PMID:30598510  


Genomics

Comparative Map Data
Tgfbr3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2142,489,397 - 2,665,383 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl142,489,397 - 2,663,341 (+)Ensembl
Rnor_6.0143,506,416 - 3,680,508 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl143,506,339 - 3,682,545 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0143,509,601 - 3,683,814 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4143,051,039 - 3,240,286 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1143,051,038 - 3,240,286 (+)NCBI
Celera142,505,821 - 2,679,576 (+)NCBICelera
Cytogenetic Map14p22NCBI
TGFBR3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl191,680,343 - 91,906,335 (-)EnsemblGRCh38hg38GRCh38
GRCh38191,680,343 - 91,906,002 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37192,145,900 - 92,371,559 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36191,920,575 - 92,124,243 (-)NCBINCBI36hg18NCBI36
Build 34191,860,007 - 92,063,676NCBI
Celera190,391,974 - 90,597,757 (-)NCBI
Cytogenetic Map1p22.1NCBI
HuRef190,263,929 - 90,491,182 (-)NCBIHuRef
CHM1_1192,261,010 - 92,486,411 (-)NCBICHM1_1
Tgfbr3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395107,254,433 - 107,437,495 (-)NCBIGRCm39mm39
GRCm39 Ensembl5107,254,436 - 107,437,495 (-)Ensembl
GRCm385107,106,567 - 107,289,629 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5107,106,570 - 107,289,629 (-)EnsemblGRCm38mm10GRCm38
MGSCv375107,535,589 - 107,718,614 (-)NCBIGRCm37mm9NCBIm37
MGSCv365107,346,872 - 107,529,822 (-)NCBImm8
Celera5104,218,970 - 104,402,013 (-)NCBICelera
Cytogenetic Map5E5NCBI
Tgfbr3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554232,573,795 - 2,765,772 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554232,573,851 - 2,765,353 (+)NCBIChiLan1.0ChiLan1.0
TGFBR3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1193,080,452 - 93,285,587 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl193,080,452 - 93,285,587 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0194,337,275 - 94,539,229 (-)NCBIMhudiblu_PPA_v0panPan3
TGFBR3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1657,025,096 - 57,220,240 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl657,025,112 - 57,217,121 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha659,730,730 - 59,925,446 (+)NCBI
ROS_Cfam_1.0657,407,397 - 57,602,731 (+)NCBI
UMICH_Zoey_3.1657,084,907 - 57,279,569 (+)NCBI
UNSW_CanFamBas_1.0657,060,369 - 57,254,710 (+)NCBI
UU_Cfam_GSD_1.0657,523,587 - 57,718,361 (+)NCBI
Tgfbr3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405058101,608,922 - 101,793,829 (-)NCBI
SpeTri2.0NW_0049365377,154,125 - 7,340,218 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TGFBR3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4125,101,190 - 125,316,796 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14125,109,939 - 125,310,788 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24136,671,290 - 136,820,333 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TGFBR3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12041,353,182 - 41,565,357 (+)NCBIChlSab1.1chlSab2
ChlSab1.12041,353,182 - 41,565,357 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2041,353,325 - 41,565,343 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603376,431,842 - 76,637,238 (-)NCBIVero_WHO_p1.0
Tgfbr3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247425,871,155 - 6,080,773 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D14Rat69  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2142,534,241 - 2,534,422 (+)MAPPERmRatBN7.2
Rnor_6.0143,551,502 - 3,551,682NCBIRnor6.0
Rnor_5.0143,554,725 - 3,554,905UniSTSRnor5.0
RGSC_v3.4143,095,371 - 3,095,793RGDRGSC3.4
RGSC_v3.4143,095,581 - 3,095,761UniSTSRGSC3.4
RGSC_v3.1143,095,581 - 3,095,761RGD
Celera142,550,526 - 2,550,706UniSTS
RH 3.4 Map1446.1RGD
RH 3.4 Map1446.1UniSTS
RH 2.0 Map1461.5RGD
SHRSP x BN Map142.29RGD
Cytogenetic Map14p22UniSTS
D14Wox30  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2142,487,650 - 2,487,796 (+)MAPPERmRatBN7.2
Rnor_6.0143,504,670 - 3,504,815NCBIRnor6.0
Rnor_5.0143,507,855 - 3,508,000UniSTSRnor5.0
RGSC_v3.4143,049,293 - 3,049,438UniSTSRGSC3.4
Celera142,504,075 - 2,504,220UniSTS
Cytogenetic Map14p22UniSTS
RH143675  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2142,662,789 - 2,662,918 (+)MAPPERmRatBN7.2
Rnor_6.0143,679,957 - 3,680,085NCBIRnor6.0
Rnor_5.0143,683,263 - 3,683,391UniSTSRnor5.0
RGSC_v3.4143,239,735 - 3,239,863UniSTSRGSC3.4
Celera142,679,025 - 2,679,153UniSTS
RH 3.4 Map1445.2UniSTS
Cytogenetic Map14p22UniSTS
AU049133  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2142,642,124 - 2,642,301 (+)MAPPERmRatBN7.2
Rnor_6.0143,659,276 - 3,659,452NCBIRnor6.0
Rnor_5.0143,662,499 - 3,662,675UniSTSRnor5.0
RGSC_v3.4143,204,499 - 3,204,675UniSTSRGSC3.4
Celera142,658,397 - 2,658,573UniSTS
Cytogenetic Map14p22UniSTS
AU049415  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2142,621,023 - 2,621,151 (+)MAPPERmRatBN7.2
Rnor_6.0143,638,443 - 3,638,570NCBIRnor6.0
Rnor_5.0143,641,666 - 3,641,793UniSTSRnor5.0
RGSC_v3.4143,183,398 - 3,183,525UniSTSRGSC3.4
Celera142,637,296 - 2,637,423UniSTS
Cytogenetic Map14p22UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
71115Niddm15Non-insulin dependent diabetes mellitus QTL 154.8blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14121760611030812Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14121760616960180Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:112
Count of miRNA genes:98
Interacting mature miRNAs:103
Transcripts:ENSRNOT00000002867
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 38 35 24 14 24 3 3 14 35 40 11 3
Low 2 5 22 17 5 17 5 8 60 1 5
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002867   ⟹   ENSRNOP00000002867
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl142,489,397 - 2,663,341 (+)Ensembl
Rnor_6.0 Ensembl143,506,339 - 3,682,545 (+)Ensembl
RefSeq Acc Id: NM_017256   ⟹   NP_058952
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2142,489,397 - 2,663,341 (+)NCBI
Rnor_6.0143,506,416 - 3,680,508 (+)NCBI
Rnor_5.0143,509,601 - 3,683,814 (+)NCBI
RGSC_v3.4143,051,039 - 3,240,286 (+)RGD
Celera142,505,821 - 2,679,576 (+)RGD
Sequence:
RefSeq Acc Id: XM_039091791   ⟹   XP_038947719
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2142,576,672 - 2,665,383 (+)NCBI
RefSeq Acc Id: XM_039091792   ⟹   XP_038947720
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2142,576,672 - 2,665,383 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_058952   ⟸   NM_017256
- Peptide Label: precursor
- UniProtKB: P26342 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002867   ⟸   ENSRNOT00000002867
RefSeq Acc Id: XP_038947720   ⟸   XM_039091792
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038947719   ⟸   XM_039091791
- Peptide Label: isoform X1
Protein Domains
ZP

Transcriptome

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

Promoters
RGD ID:13699162
Promoter ID:EPDNEW_R9687
Type:initiation region
Name:Tgfbr3_1
Description:transforming growth factor beta receptor 3
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_6.0143,506,331 - 3,506,391EPDNEW

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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61821 AgrOrtholog
Ensembl Genes ENSRNOG00000002093 Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000002867 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000002867 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.4100 UniProtKB/Swiss-Prot
InterPro ZP-C UniProtKB/Swiss-Prot
  ZP_dom UniProtKB/Swiss-Prot
  ZP_dom_CS UniProtKB/Swiss-Prot
KEGG Report rno:29610 UniProtKB/Swiss-Prot
NCBI Gene 29610 ENTREZGENE
Pfam Zona_pellucida UniProtKB/Swiss-Prot
PhenoGen Tgfbr3 PhenoGen
PRINTS ZPELLUCIDA UniProtKB/Swiss-Prot
PROSITE ZP_1 UniProtKB/Swiss-Prot
  ZP_2 UniProtKB/Swiss-Prot
SMART SM00241 UniProtKB/Swiss-Prot
TIGR TC208061
UniProt P26342 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-05 Tgfbr3  transforming growth factor beta receptor 3  Tgfbr3  transforming growth factor, beta receptor III  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Tgfbr3  transforming growth factor, beta receptor 3      Symbol and Name status set to approved 1299863 APPROVED
2002-06-10 Tgfbr3  transforming growth factor, beta receptor 3      Name updated 70585 PROVISIONAL
2001-05-08 Tgfbr3  transforming growth factor, beta receptor III      Original symbol typographical error corrected 62408 APPROVED
2001-05-08 Tgfr3  transforming growth factor, beta receptor III      Typographical error in gene symbol 62408 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization integral cellular membrane protein 61766
gene_expression expressed in reproductive tissues and cells, brain and pituitary gland 730228
gene_physical_interaction binds inhibin A and TGF beta 730228
gene_physical_interaction specifically binds TGF beta 1 729942
gene_process may modulate effects of inhibin and TGF beta in reproductive tissues 730228
gene_process may regulate TGF beta II receptor function or expression 729942
gene_process may regulate follicle-stimulating hormone (FSH) release from pituitary by regulation of inhibin 1299110
gene_protein 853 amino acid core protein; expressed as a membrane-anchored proteoglycan 61766
gene_regulation expression levels in lung are downregulated following hypoxia 727411