Tfpi (tissue factor pathway inhibitor) - Rat Genome Database

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Gene: Tfpi (tissue factor pathway inhibitor) Rattus norvegicus
Analyze
Symbol: Tfpi
Name: tissue factor pathway inhibitor
RGD ID: 61914
Description: Predicted to have serine-type endopeptidase inhibitor activity. Involved in cellular response to interleukin-1; cellular response to lipopolysaccharide; and response to estradiol. Localizes to extracellular space. Biomarker of atrial fibrillation; disseminated intravascular coagulation; myocardial infarction; and osteonecrosis. Human ortholog(s) of this gene implicated in several diseases, including factor VIII deficiency; osteonecrosis; thrombophilia (multiple); toxic shock syndrome; and transient cerebral ischemia. Orthologous to human TFPI (tissue factor pathway inhibitor); PARTICIPATES IN coagulation cascade pathway; syndecan signaling pathway; complement system pathway; INTERACTS WITH 17alpha-ethynylestradiol; 6-propyl-2-thiouracil; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: EPI; extrinsic pathway inhibitor; LACI; lipoprotein-associated coagulation inhibitor; tissue factor pathway inhibitor (lipoprotein-associated coagulation inhibitor)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2369,533,156 - 69,582,547 (-)NCBI
Rnor_6.0 Ensembl371,852,744 - 71,893,618 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0371,852,738 - 71,902,127 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0378,373,808 - 78,423,115 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4367,654,389 - 67,697,178 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1367,550,760 - 67,593,550 (-)NCBI
Celera368,890,124 - 68,933,788 (-)NCBICelera
Cytogenetic Map3q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,2-dichloroethane  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
amphetamine  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
belinostat  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
beta-naphthoflavone  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
busulfan  (ISO)
butan-1-ol  (ISO)
butanal  (ISO)
carbon nanotube  (ISO)
carvedilol  (EXP)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibric acid  (EXP)
clomiphene  (ISO)
cobalt dichloride  (EXP)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
D-glucose  (ISO)
dexamethasone  (ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
diethylstilbestrol  (EXP,ISO)
dimethyl sulfoxide  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
Enterolactone  (ISO)
estrone  (ISO)
ethanol  (ISO)
etoposide  (ISO)
fluvastatin  (ISO)
formaldehyde  (ISO)
fulvestrant  (EXP,ISO)
geldanamycin  (ISO)
genistein  (EXP,ISO)
glucose  (ISO)
hexestrol  (ISO)
indole-3-methanol  (EXP)
irbesartan  (EXP)
irinotecan  (ISO)
isobutanol  (ISO)
Lasiocarpine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
medroxyprogesterone acetate  (ISO)
mercury dibromide  (ISO)
mestranol  (ISO)
methylmercury chloride  (ISO)
mitomycin C  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
N-nitrosodiethylamine  (EXP)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
PD 0325901  (ISO)
pentanal  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP)
potassium chromate  (ISO)
progesterone  (ISO)
propanal  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP)
tamoxifen  (ISO)
testosterone  (ISO)
topotecan  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Bombeli T, etal., Thromb Haemost. 2004 Jan;91(1):80-6.
2. Bregengard C, etal., Blood Coagul Fibrinolysis. 1993 Oct;4(5):699-706.
3. Carlsson K, etal., Eur J Biochem. 2003 Jun;270(12):2576-82.
4. Castoldi E, etal., J Thromb Haemost. 2010 Feb;8(2):294-300. doi: 10.1111/j.1538-7836.2009.03712.x. Epub 2009 Nov 30.
5. Choi G, etal., Eur Respir J. 2007 Sep;30(3):423-8. Epub 2007 May 30.
6. Dahm A, etal., Blood. 2003 Jun 1;101(11):4387-92. Epub 2003 Jan 30.
7. Dai XL, etal., Mol Cells. 2008 Nov 30;26(5):490-5.
8. Dietzen DJ, etal., Thromb Haemost. 2003 Jan;89(1):65-73.
9. Duckers C, etal., Blood. 2008 Nov 1;112(9):3615-23. doi: 10.1182/blood-2008-06-162453. Epub 2008 Aug 11.
10. Duering C, etal., Thromb Haemost. 2004 Oct;92(4):707-12.
11. Elsayed YA, etal., Am J Clin Pathol. 1996 Nov;106(5):574-83.
12. Enjyoji K, etal., J Biochem (Tokyo) 1992 May;111(5):681-7.
13. Enkhbaatar P, etal., Thromb Haemost. 2001 Dec;86(6):1573-7.
14. Erez O, etal., J Matern Fetal Neonatal Med. 2008 Oct;21(10):732-44. doi: 10.1080/14767050802361807.
15. Ertenli I, etal., Ann Rheum Dis. 2001 Dec;60(12):1149-51.
16. Farid FA, etal., SAJCH. 2011 Dec;5(4):107-111.
17. Fujii M, etal., Thromb Res. 2000 Jul 15;99(2):111-7.
18. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
19. Ghrib F, etal., Thromb Haemost 2002 Jun;87(6):1051-6.
20. Golino P, etal., Circulation. 2003 Dec 9;108(23):2864-9. Epub 2003 Dec 1.
21. Han X, etal., Arterioscler Thromb Vasc Biol. 1999 Oct;19(10):2563-7.
22. Hao J, etal., J Huazhong Univ Sci Technolog Med Sci. 2009 Dec;29(6):697-700. doi: 10.1007/s11596-009-0604-4. Epub 2009 Dec 29.
23. Hara S, etal., Lab Invest. 1997 Dec;77(6):581-9.
24. Hoke M, etal., Thromb Haemost. 2005 Oct;94(4):787-90.
25. Huang ZF, etal., Blood. 1997 Aug 1;90(3):944-51.
26. Iversen N, etal., Thromb Res. 2002 Jan 1;105(1):33-6.
27. Kereveur A, etal., Thromb Haemost 2001 Nov;86(5):1314-9.
28. Kijiyama N, etal., Biochem Biophys Res Commun. 2006 Jan 27;339(4):1113-9. Epub 2005 Dec 5.
29. Kobayashi M, etal., Thromb Haemost. 1995 Jan;73(1):10-4.
30. Lupu C, etal., J Biol Chem. 2005 Jun 10;280(23):22308-17. Epub 2005 Apr 6.
31. Maroney SA, etal., J Thromb Haemost. 2008 Jan;6(1):111-7. Epub 2007 Oct 25.
32. Maroney SA, etal., Proc Natl Acad Sci U S A. 2012 Mar 6;109(10):3927-31. doi: 10.1073/pnas.1119858109. Epub 2012 Feb 21.
33. MGD data from the GO Consortium
34. Mochida S, etal., Hepatology. 1999 May;29(5):1532-40.
35. Mukai Y and Sato S, Pregnancy Hypertens. 2012 Jan;2(1):53-8. doi: 10.1016/j.preghy.2011.10.002. Epub 2011 Oct 21.
36. NCBI rat LocusLink and RefSeq merged data July 26, 2002
37. Niiro M, etal., Thromb Res. 2008;122(2):247-55. Epub 2007 Dec 11.
38. Norris LA, Best Pract Res Clin Obstet Gynaecol. 2003 Jun;17(3):369-83.
39. Ogiwara K, etal., Int J Hematol. 2014;99(5):577-87. doi: 10.1007/s12185-014-1572-4. Epub 2014 Apr 1.
40. Okugawa Y, etal., Am J Hematol. 2000 Nov;65(3):210-4.
41. Park JB, etal., PLoS One. 2011;6(11):e28327. doi: 10.1371/journal.pone.0028327. Epub 2011 Nov 29.
42. Parunov LA, etal., Thromb Res. 2014 Jan;133(1):112-9. doi: 10.1016/j.thromres.2013.10.036. Epub 2013 Nov 1.
43. Peled E, etal., Thromb Res. 2013 Jan;131(1):94-8. doi: 10.1016/j.thromres.2012.09.018. Epub 2012 Oct 9.
44. Pipeline to import KEGG annotations from KEGG into RGD
45. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
46. Potze W, etal., Br J Haematol. 2013 Sep;162(6):819-26. doi: 10.1111/bjh.12462. Epub 2013 Jul 11.
47. Rancourt RC, etal., Toxicol Appl Pharmacol. 2013 Oct 1;272(1):86-95. doi: 10.1016/j.taap.2013.05.020. Epub 2013 May 30.
48. Ravindranath TM, etal., Clin Appl Thromb Hemost. 2004 Oct;10(4):379-85.
49. RGD automated data pipeline
50. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
51. RGD automated import pipeline for gene-chemical interactions
52. Rogolino A, etal., Blood Coagul Fibrinolysis. 2003 Apr;14(3):277-82.
53. Saito M, etal., Rinsho Ketsueki. 1996 Sep;37(9):794-8.
54. Schjetlein R, etal., Acta Obstet Gynecol Scand. 1999 Mar;78(3):191-7.
55. Schneider P, etal., Br J Haematol. 2010 Feb;148(4):582-92. doi: 10.1111/j.1365-2141.2009.07958.x. Epub 2009 Oct 28.
56. Shirk RA, etal., J Steroid Biochem Mol Biol. 2005 Mar;94(4):361-8.
57. Sidelmann JJ, etal., Blood Coagul Fibrinolysis. 2008 Jul;19(5):405-9. doi: 10.1097/MBC.0b013e3283049639.
58. Smith SA, etal., Crit Rev Biochem Mol Biol. 2015;50(4):326-36. doi: 10.3109/10409238.2015.1050550. Epub 2015 May 28.
59. Steppich B, etal., Thromb Haemost. 2005 Jan;93(1):35-9.
60. Sun Y, etal., Zhongguo Shi Yan Xue Ye Xue Za Zhi. 2008 Jun;16(3):493-6.
61. Tardy-Poncet B, etal., Thromb Res. 2012 Dec;130(6):925-8. doi: 10.1016/j.thromres.2012.07.025. Epub 2012 Oct 15.
62. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
63. Ushigome H, etal., J Surg Res. 2002 Feb;102(2):102-9.
64. Westrick RJ, etal., Circulation. 2001 Jun 26;103(25):3044-6.
65. Yamashita T, etal., Circulation 2003 Nov 18;108(20):2450-2. Epub 2003 Nov 10.
66. Yoshimura N, etal., Transplantation. 1999 Jan 15;67(1):45-53.
67. Yu J, etal., Heart Vessels. 2011 Nov;26(6):646-53. doi: 10.1007/s00380-010-0106-0. Epub 2011 Jan 13.
68. Zhu Y, etal., Hunan Yi Ke Da Xue Xue Bao. 2000 Aug 28;25(4):401-2, 405.
Additional References at PubMed
PMID:12477932   PMID:18368493   PMID:19065458   PMID:19581412   PMID:21868574   PMID:24006456   PMID:25931508  


Genomics

Comparative Map Data
Tfpi
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2369,533,156 - 69,582,547 (-)NCBI
Rnor_6.0 Ensembl371,852,744 - 71,893,618 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0371,852,738 - 71,902,127 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0378,373,808 - 78,423,115 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4367,654,389 - 67,697,178 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1367,550,760 - 67,593,550 (-)NCBI
Celera368,890,124 - 68,933,788 (-)NCBICelera
Cytogenetic Map3q24NCBI
TFPI
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2187,464,230 - 187,565,760 (-)EnsemblGRCh38hg38GRCh38
GRCh382187,464,230 - 187,554,501 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372188,328,957 - 188,419,162 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362188,037,202 - 188,127,464 (-)NCBINCBI36hg18NCBI36
Build 342188,156,790 - 188,244,556NCBI
Celera2181,925,068 - 182,015,356 (-)NCBI
Cytogenetic Map2q32.1NCBI
HuRef2180,188,532 - 180,278,959 (-)NCBIHuRef
CHM1_12188,334,627 - 188,424,881 (-)NCBICHM1_1
Tfpi
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39284,263,199 - 84,307,119 (-)NCBIGRCm39mm39
GRCm39 Ensembl284,263,199 - 84,307,119 (-)Ensembl
GRCm38284,432,855 - 84,476,775 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl284,432,855 - 84,476,775 (-)EnsemblGRCm38mm10GRCm38
MGSCv37284,273,017 - 84,316,932 (-)NCBIGRCm37mm9NCBIm37
MGSCv36284,233,699 - 84,275,013 (-)NCBImm8
Celera286,041,007 - 86,084,914 (-)NCBICelera
Cytogenetic Map2DNCBI
Tfpi
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540310,924,893 - 11,004,284 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540310,925,155 - 11,004,229 (+)NCBIChiLan1.0ChiLan1.0
TFPI
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B192,541,881 - 192,631,867 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B192,541,881 - 192,581,384 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B74,744,154 - 74,834,338 (-)NCBIMhudiblu_PPA_v0panPan3
TFPI
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13629,457,131 - 29,546,455 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3629,459,371 - 29,511,310 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3629,358,584 - 29,410,512 (-)NCBI
ROS_Cfam_1.03629,680,362 - 29,769,683 (-)NCBI
UMICH_Zoey_3.13629,744,554 - 29,796,457 (-)NCBI
UNSW_CanFamBas_1.03629,679,616 - 29,731,462 (-)NCBI
UU_Cfam_GSD_1.03629,848,287 - 29,900,234 (-)NCBI
Tfpi
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303146,663,997 - 146,734,969 (-)NCBI
SpeTri2.0NW_00493650610,103,120 - 10,172,800 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TFPI
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1592,345,075 - 92,409,905 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11592,345,083 - 92,409,962 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215102,535,224 - 102,694,356 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TFPI
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11073,004,762 - 73,105,772 (-)NCBI
ChlSab1.1 Ensembl1073,002,522 - 73,105,858 (-)Ensembl
Tfpi
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248992,401,861 - 2,473,762 (+)NCBI

Position Markers
RH131998  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0371,860,031 - 71,860,211NCBIRnor6.0
Rnor_5.0378,381,101 - 78,381,281UniSTSRnor5.0
RGSC_v3.4367,661,676 - 67,661,856UniSTSRGSC3.4
Celera368,897,411 - 68,897,591UniSTS
Cytogenetic Map3q24UniSTS
RH142666  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0371,864,920 - 71,865,108NCBIRnor6.0
Rnor_5.0378,385,990 - 78,386,178UniSTSRnor5.0
RGSC_v3.4367,666,565 - 67,666,753UniSTSRGSC3.4
Celera368,902,300 - 68,902,488UniSTS
Cytogenetic Map3q24UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3195176874Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31009408193415837Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31011931879772001Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)310639528127023997Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)310639528127023997Rat
2302055Pia30Pristane induced arthritis QTL 303.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)32932171474321714Rat
9590286Uminl1Urine mineral level QTL 13.50.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)32968273274682732Rat
9590136Scort3Serum corticosterone level QTL 323.370.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)32968273274682732Rat
8552950Pigfal12Plasma insulin-like growth factor 1 level QTL 127.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)32968273274682732Rat
8694196Abfw2Abdominal fat weight QTL 216.580.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)32968273274682732Rat
8694386Bw159Body weight QTL 1594.520.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)32968273274682732Rat
1354590Despr11Despair related QTL 110.000031locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)32990825574908255Rat
2303593Gluco46Glucose level QTL 463blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)32990825574908255Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)330114912123700444Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)330846101172879276Rat
2301400Cm68Cardiac mass QTL 680.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)33110358972989078Rat
11565451Bw177Body weight QTL 1770.002body mass (VT:0001259)body weight (CMO:0000012)33110358972989078Rat
11565452Kidm57Kidney mass QTL 570.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)33110358972989078Rat
12879866Cm94Cardiac mass QTL 940.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)33110358972989078Rat
12879867Cm95Cardiac mass QTL 950.047heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)33110358972989078Rat
12879868Am6Aortic mass QTL 60.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)33110358972989078Rat
61356Bp37Blood pressure QTL 373blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)33213099777130997Rat
631647Bp122Blood pressure QTL 1226.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)33213099777130997Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)33347735481136227Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333477354108914061Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)334394121103141944Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)339248391140271184Rat
738019Anxrr10Anxiety related response QTL 103.9exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)34042292185422921Rat
1331777Bw24Body weight QTL 243.503body mass (VT:0001259)body weight (CMO:0000012)34052359392654473Rat
1331795Rf30Renal function QTL 303.708urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)34052359392654473Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)343295930108914061Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)343295930163640485Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)343295930163640485Rat
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)34540605894467785Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)345406058127023997Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)345406058177699992Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)348561928155263151Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)348562146115249962Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)348562146115249962Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)351821836124513579Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)351822008120917851Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)354630948119830094Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)354630948119830094Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)354630948119830094Rat
61377Edpm3Estrogen-dependent pituitary mass QTL 37.050.038pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)35463104693415673Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)35524527695176874Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)35524527695176874Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35524527695176874Rat
1358293Bw38Body weight QTL 3860.0000031body mass (VT:0001259)body weight (CMO:0000012)356735995101735995Rat
1581568Rf53Renal function QTL 53total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)358204463170534769Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)361241033165369047Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)362922868127023997Rat
631200Cm25Cardiac mass QTL 254.80.0001heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)36304905092654302Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)366711607119830094Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)366711607119830094Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:140
Count of miRNA genes:113
Interacting mature miRNAs:123
Transcripts:ENSRNOT00000006787, ENSRNOT00000057685
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 43 38 28 13 28 2 2 68 33 37 11 2
Low 3 19 13 6 13 6 9 6 2 4 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001177321 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_017200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234441 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234444 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761980 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761982 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761983 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761984 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761986 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104441 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104442 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC116089 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC087020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D10926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220711 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000006787   ⟹   ENSRNOP00000006787
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl371,852,744 - 71,893,600 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000057685   ⟹   ENSRNOP00000054493
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl371,859,982 - 71,893,618 (-)Ensembl
RefSeq Acc Id: NM_001177321   ⟹   NP_001170792
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,540,400 - 69,576,838 (-)NCBI
Rnor_6.0371,859,981 - 71,896,419 (-)NCBI
Rnor_5.0378,373,808 - 78,423,115 (-)NCBI
Celera368,897,361 - 68,933,788 (-)NCBI
Sequence:
RefSeq Acc Id: NM_017200   ⟹   NP_058896
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,533,162 - 69,574,019 (-)NCBI
Rnor_6.0371,852,744 - 71,893,600 (-)NCBI
Rnor_5.0378,373,808 - 78,423,115 (-)NCBI
RGSC_v3.4367,654,389 - 67,697,178 (-)RGD
Celera368,890,124 - 68,930,969 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234440   ⟹   XP_006234502
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,533,156 - 69,577,044 (-)NCBI
Rnor_6.0371,852,738 - 71,896,641 (-)NCBI
Rnor_5.0378,373,808 - 78,423,115 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234441   ⟹   XP_006234503
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,533,156 - 69,575,123 (-)NCBI
Rnor_6.0371,852,738 - 71,895,103 (-)NCBI
Rnor_5.0378,373,808 - 78,423,115 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234444   ⟹   XP_006234506
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,533,156 - 69,575,124 (-)NCBI
Rnor_6.0371,852,738 - 71,895,103 (-)NCBI
Rnor_5.0378,373,808 - 78,423,115 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761980   ⟹   XP_008760202
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,533,156 - 69,577,060 (-)NCBI
Rnor_6.0371,852,738 - 71,896,660 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761981   ⟹   XP_008760203
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,533,156 - 69,582,547 (-)NCBI
Rnor_6.0371,852,738 - 71,902,127 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761982   ⟹   XP_008760204
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,533,156 - 69,577,112 (-)NCBI
Rnor_6.0371,852,738 - 71,896,693 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761983   ⟹   XP_008760205
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,533,156 - 69,575,886 (-)NCBI
Rnor_6.0371,852,738 - 71,895,105 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761984   ⟹   XP_008760206
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,533,156 - 69,575,886 (-)NCBI
Rnor_6.0371,852,738 - 71,895,105 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761985   ⟹   XP_008760207
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,540,400 - 69,577,078 (-)NCBI
Rnor_6.0371,859,981 - 71,896,655 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761986   ⟹   XP_008760208
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,540,400 - 69,577,071 (-)NCBI
Rnor_6.0371,859,981 - 71,896,650 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039104441   ⟹   XP_038960369
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,533,156 - 69,577,112 (-)NCBI
RefSeq Acc Id: XM_039104442   ⟹   XP_038960370
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2369,540,400 - 69,577,053 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_058896   ⟸   NM_017200
- Peptide Label: isoform 1 precursor
- UniProtKB: Q02445 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001170792   ⟸   NM_001177321
- Peptide Label: isoform 2 precursor
- UniProtKB: Q5PQU8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006234502   ⟸   XM_006234440
- Peptide Label: isoform X2
- UniProtKB: Q02445 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006234503   ⟸   XM_006234441
- Peptide Label: isoform X2
- UniProtKB: Q02445 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006234506   ⟸   XM_006234444
- Peptide Label: isoform X2
- UniProtKB: Q02445 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008760203   ⟸   XM_008761981
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008760204   ⟸   XM_008761982
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008760202   ⟸   XM_008761980
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008760205   ⟸   XM_008761983
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008760206   ⟸   XM_008761984
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008760207   ⟸   XM_008761985
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008760208   ⟸   XM_008761986
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000054493   ⟸   ENSRNOT00000057685
RefSeq Acc Id: ENSRNOP00000006787   ⟸   ENSRNOT00000006787
RefSeq Acc Id: XP_038960369   ⟸   XM_039104441
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038960370   ⟸   XM_039104442
- Peptide Label: isoform X5
Protein Domains
BPTI/Kunitz inhibitor

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 (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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 (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/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 (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)
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
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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
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/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
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 (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (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
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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
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 (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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (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/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (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 (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:61914 AgrOrtholog
Ensembl Genes ENSRNOG00000005039 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000006787 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000054493 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006787 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000057685 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 4.10.410.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7192382 IMAGE-MGC_LOAD
InterPro Kunitz_BPTI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kunitz_BPTI_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prtase_inh_Kunz-CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TFPI-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29436 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93499 IMAGE-MGC_LOAD
NCBI Gene 29436 ENTREZGENE
Pfam Kunitz_BPTI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tfpi PhenoGen
PIRSF TFPI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS BASICPTASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE BPTI_KUNITZ_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BPTI_KUNITZ_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00131 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57362 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC206777
UniProt Q02445 ENTREZGENE
  Q5PQU8 ENTREZGENE, UniProtKB/TrEMBL
  TFPI1_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-25 Tfpi  tissue factor pathway inhibitor  Tfpi  tissue factor pathway inhibitor (lipoprotein-associated coagulation inhibitor)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-24 Tfpi  tissue factor pathway inhibitor (lipoprotein-associated coagulation inhibitor)  Tfpi  tissue factor pathway inhibitor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Tfpi  tissue factor pathway inhibitor      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease downregulation in atrial endocardium may contribute to coagulation imbalance in atrial fibrillation 1299121
gene_expression expressed is increased in synthetic (neo-intimal) smooth muscle cells 1299120
gene_process production by synthetic (neo-intimal) smooth muscle cells may be involved in neo-intima formation 1299120
gene_regulation expression in cardiomyocytes is increased upon treatment with IL-1beta 727341