F3 (coagulation factor III, tissue factor) - Rat Genome Database

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Gene: F3 (coagulation factor III, tissue factor) Rattus norvegicus
Analyze
Symbol: F3
Name: coagulation factor III, tissue factor
RGD ID: 2587
Description: Enables protease binding activity. Involved in several processes, including cellular response to low-density lipoprotein particle stimulus; positive regulation of smooth muscle cell migration; and response to estradiol. Located in cell surface; cytoplasm; and extracellular space. Biomarker of disseminated intravascular coagulation; hypertension; and myocardial infarction. Human ortholog(s) of this gene implicated in B-lymphoblastic leukemia/lymphoma; COVID-19; disseminated intravascular coagulation; and von Willebrand's disease. Orthologous to human F3 (coagulation factor III, tissue factor); PARTICIPATES IN acenocoumarol pharmacodynamics pathway; alteplase pharmacodynamics pathway; aminocaproic acid pharmacodynamics pathway; INTERACTS WITH (S)-colchicine; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: coagulation factor 3; coagulation factor III; Coagulation factor III (thromboplastin tissue factor); coagulation factor III (thromboplastin, tissue factor); MGC93621; TF; tissue factor
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
mRatBN7.22209,827,061 - 209,838,666 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl2209,826,959 - 209,838,668 (+)Ensembl
Rnor_6.02225,310,686 - 225,322,281 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2225,310,624 - 225,322,272 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02243,348,430 - 243,360,439 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42218,371,050 - 218,382,645 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12218,334,111 - 218,345,706 (+)NCBI
Celera2202,257,415 - 202,269,039 (+)NCBICelera
Cytogenetic Map2q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Lung Injury  (IEP)
acute lymphoblastic leukemia  (ISO)
acute myeloid leukemia  (ISO)
acute pancreatitis  (ISO)
acute promyelocytic leukemia  (ISO)
adult respiratory distress syndrome  (ISO)
Anti-Neutrophil Cytoplasmic Antibody-Associated Vasculitis  (ISO)
B-lymphoblastic leukemia/lymphoma  (ISO)
bile duct disease  (ISO)
Breast Neoplasms  (ISO)
Cardiac Allograft Vasculopathy  (IEP)
Cardiac Fibrosis  (ISO)
carotid artery thrombosis  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
COVID-19  (ISO)
diabetes mellitus  (ISO)
diabetic angiopathy  (ISO)
Diabetic Nephropathies  (ISO)
diabetic retinopathy  (ISO)
disseminated intravascular coagulation  (IEP,ISO)
Embolism and Thrombosis  (ISO)
Endotoxemia  (IDA,ISO)
Experimental Diabetes Mellitus  (ISO)
familial hyperlipidemia  (ISO)
Graft vs Host Disease  (ISO)
Hemorrhage  (ISO)
hypertension  (IEP)
idiopathic pulmonary fibrosis  (ISO)
Inflammation  (IEP)
Kidney Reperfusion Injury  (IEP)
liver cirrhosis  (ISO)
Liver Injury  (ISO)
Liver Reperfusion Injury  (IMP)
Metabolic Syndrome  (ISO)
myeloid neoplasm  (ISO)
myocardial infarction  (IEP)
Myocardial Ischemia  (ISO)
Neointima  (IEP)
nephrotic syndrome  (ISO)
ovarian hyperstimulation syndrome  (ISO)
Ovary Reperfusion Injury  (IEP)
Peritoneal Fibrosis  (IEP)
pre-eclampsia  (ISO)
preterm premature rupture of the membranes  (ISO)
Sepsis  (IEP,ISO)
sickle cell anemia  (ISO)
Snake Bites  (IEP)
Spontaneous Abortions  (ISO)
Systemic Inflammatory Response Syndrome  (ISO)
Thromboembolism  (ISO)
thrombophilia  (ISO)
thrombosis  (ISO)
Thrombotic Microangiopathies  (ISO)
thrombotic thrombocytopenic purpura  (ISO)
type 2 diabetes mellitus  (ISO)
Venous Thrombosis  (ISO)
Viral Myocarditis  (ISO)
von Willebrand's disease  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(R)-mevalonic acid  (ISO)
(R)-noradrenaline  (ISO)
(S)-colchicine  (EXP)
(S)-nicotine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-benzothiazole-2-thiol  (ISO)
1,4-dithiothreitol  (ISO)
1-naphthyl isothiocyanate  (ISO)
1-nitropyrene  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-di-tert-butyl-4-methylphenol  (ISO)
2-trans,6-trans,10-trans-geranylgeranyl diphosphate  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-[3-(tert-butylsulfanyl)-1-(4-chlorobenzyl)-5-(propan-2-yl)-1H-indol-2-yl]-2,2-dimethylpropanoic acid  (ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
abiraterone  (ISO)
acetamide  (EXP)
acrylamide  (ISO)
actinomycin D  (ISO)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
AM-251  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP,ISO)
anandamide  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
arachidonic acid  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
bryostatin 1  (ISO)
bryostatin 2  (ISO)
butan-1-ol  (ISO)
cadmium dichloride  (EXP)
calciol  (ISO)
cangrelor  (ISO)
cannabidiol  (ISO)
capsazepine  (ISO)
carbon nanotube  (ISO)
carmustine  (EXP)
carvedilol  (EXP)
chloropicrin  (ISO)
chloroprene  (EXP)
chlorphenamine  (ISO)
chromium(6+)  (ISO)
cis-caffeic acid  (ISO)
cisplatin  (EXP)
clomiphene  (ISO)
clopidogrel  (ISO)
cobalt dichloride  (ISO)
concanamycin A  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
crizotinib  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
curcumin  (ISO)
cycloheximide  (ISO)
cyclophosphamide  (ISO)
cypermethrin  (ISO)
cytochalasin D  (ISO)
daunorubicin  (ISO)
deoxynivalenol  (ISO)
desferrioxamine B  (ISO)
desloratadine  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibenz[a,h]anthracene  (ISO)
dibenziodolium  (ISO)
dibutyl phthalate  (EXP,ISO)
dichloroacetic acid  (ISO)
dioxygen  (ISO)
diphenhydramine  (ISO)
diuron  (EXP)
dobutamine  (ISO)
donepezil hydrochloride  (ISO)
dopamine  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enalapril  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
etonogestrel  (EXP)
etoposide  (ISO)
everolimus  (ISO)
fenamidone  (ISO)
ferric ammonium citrate  (ISO)
ferroheme b  (ISO)
fluoranthene  (ISO)
fluvastatin  (ISO)
folic acid  (ISO)
fructose  (ISO)
furan  (EXP)
gentamycin  (EXP)
geranylgeraniol  (ISO)
glutathione  (ISO)
heme b  (ISO)
Hexadimethrine bromide  (EXP)
hinokiflavone  (ISO)
histamine  (ISO)
histamine phosphate  (ISO)
ibuprofen  (ISO)
indole-3-acetic acid  (ISO)
indometacin  (ISO)
irbesartan  (EXP)
isobutanol  (ISO)
ketoconazole  (ISO)
L-1,4-dithiothreitol  (ISO)
L-ascorbic acid  (ISO)
lenalidomide  (ISO)
lipopolysaccharide  (EXP,ISO)
lithium chloride  (ISO)
losartan  (ISO)
LY294002  (ISO)
mancozeb  (ISO)
medroxyprogesterone acetate  (EXP,ISO)
mepyramine  (ISO)
mercury dibromide  (ISO)
mercury dichloride  (ISO)
methamphetamine  (ISO)
Methanandamide  (ISO)
methotrexate  (EXP,ISO)
methylmercury chloride  (ISO)
mifamurtide  (ISO)
mifepristone  (EXP,ISO)
mithramycin  (ISO)
MK-2206  (ISO)
mometasone furoate  (ISO)
mono(2-ethylhexyl) phthalate  (EXP)
Monobutylphthalate  (ISO)
monocrotaline  (ISO)
N-acetyl-L-cysteine  (ISO)
N-acetylsphingosine  (ISO)
N-ethylmaleimide  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
N-methyl-N-nitrosourea  (EXP)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
naphthalene  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
nicotinamide  (ISO)
nicotine  (ISO)
nimesulide  (ISO)
nitrofen  (EXP)
notoginsenoside R1  (ISO)
ochratoxin A  (EXP,ISO)
oxaliplatin  (ISO)
ozone  (EXP,ISO)
paclitaxel  (ISO)
palbociclib  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
perfluorohexanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenethyl isothiocyanate  (ISO)
phenformin  (EXP)
phenobarbital  (EXP,ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
phosgene  (ISO)
pirinixic acid  (ISO)
primaquine  (ISO)
primidone  (ISO)
probucol  (ISO)
progesterone  (EXP,ISO)
pyrrolidine dithiocarbamate  (ISO)
quercetin  (ISO)
quercitrin  (ISO)
quinolin-8-ol  (ISO)
ranitidine  (EXP)
resveratrol  (ISO)
riddelliine  (EXP)
rivaroxaban  (EXP)
SB 203580  (ISO)
SB 431542  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (EXP,ISO)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (ISO)
sirolimus  (ISO)
sirtinol  (ISO)
sodium arsenite  (ISO)
splitomicin  (ISO)
staurosporine  (ISO)
streptozocin  (EXP)
succimer  (ISO)
Sudan I  (ISO)
sulfasalazine  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
Temsirolimus  (ISO)
terconazole  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
tibolone  (ISO)
tin(II) chloride (anhydrous)  (ISO)
tioguanine  (EXP)
titanium dioxide  (ISO)
torin 1  (ISO)
trans-caffeic acid  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vincaleukoblastine  (EXP)
vinclozolin  (EXP)
vincristine  (EXP,ISO)
vitamin E  (ISO)
WIN 55212-2  (ISO)
wortmannin  (ISO)
XL147  (ISO)
zoledronic acid  (ISO)
zotarolimus  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
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20. GOA data from the GO Consortium
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35. Matsuyama M, etal., Transplant Proc 2002 Aug;34(5):1475-6.
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38. Melis E, etal., Biochem Biophys Res Commun. 2005 Jul 29;333(2):488-95.
39. MGD data from the GO Consortium
40. Mohan JS, etal., Blood Coagul Fibrinolysis. 2005 Apr;16(3):209-14.
41. Molor-Erdene P, etal., Thromb Haemost. 2005 Jul;94(1):136-45.
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43. Nakamura K, etal., Transplant Proc. 2001 Nov-Dec;33(7-8):3707-8.
44. Nakasaki T, etal., Clin Appl Thromb Hemost. 2000 Jan;6(1):14-7.
45. NCBI rat LocusLink and RefSeq merged data July 26, 2002
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51. Penn MS, etal., Circulation. 1999 Apr 6;99(13):1753-9.
52. Pipeline to import KEGG annotations from KEGG into RGD
53. Pipeline to import SMPDB annotations from SMPDB into RGD
54. Qi H, etal., Haemostasis. 1997 Mar-Apr;27(2):57-64.
55. Ramlall V, etal., Nat Med. 2020 Aug 3. pii: 10.1038/s41591-020-1021-2. doi: 10.1038/s41591-020-1021-2.
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57. RGD automated data pipeline
58. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
59. RGD automated import pipeline for gene-chemical interactions
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75. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
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Additional References at PubMed
PMID:2704749   PMID:3455766   PMID:8632006   PMID:12362240   PMID:12958621   PMID:17469850   PMID:17586694   PMID:17595667   PMID:17898544   PMID:17991872   PMID:18612547   PMID:18621373  
PMID:19062044   PMID:19065458   PMID:19265029   PMID:19439347   PMID:19581412   PMID:19734584   PMID:21814178   PMID:22556343   PMID:22647506   PMID:23376485   PMID:24998411   PMID:27542118  
PMID:28738734   PMID:30449218   PMID:30840287   PMID:33794911  


Genomics

Comparative Map Data
F3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22209,827,061 - 209,838,666 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl2209,826,959 - 209,838,668 (+)Ensembl
Rnor_6.02225,310,686 - 225,322,281 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2225,310,624 - 225,322,272 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02243,348,430 - 243,360,439 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42218,371,050 - 218,382,645 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12218,334,111 - 218,345,706 (+)NCBI
Celera2202,257,415 - 202,269,039 (+)NCBICelera
Cytogenetic Map2q41NCBI
F3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38194,529,173 - 94,541,759 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl194,529,173 - 94,541,759 (-)EnsemblGRCh38hg38GRCh38
GRCh37194,994,729 - 95,007,315 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36194,767,461 - 94,779,903 (-)NCBINCBI36hg18NCBI36
Build 34194,706,893 - 94,719,336NCBI
Celera193,249,195 - 93,261,871 (-)NCBI
Cytogenetic Map1p21.3NCBI
HuRef193,116,432 - 93,129,108 (-)NCBIHuRef
CHM1_1195,109,584 - 95,122,259 (-)NCBICHM1_1
T2T-CHM13v2.0194,377,216 - 94,389,797 (-)NCBI
F3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393121,517,186 - 121,528,701 (+)NCBIGRCm39mm39
GRCm39 Ensembl3121,517,186 - 121,528,697 (+)Ensembl
GRCm383121,723,537 - 121,735,052 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3121,723,537 - 121,735,048 (+)EnsemblGRCm38mm10GRCm38
MGSCv373121,426,455 - 121,437,970 (+)NCBIGRCm37mm9NCBIm37
MGSCv363121,715,560 - 121,727,066 (+)NCBImm8
Celera3128,097,400 - 128,112,071 (+)NCBICelera
Cytogenetic Map3G1NCBI
cM Map352.94NCBI
F3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955423254,189 - 264,159 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955423254,060 - 264,448 (+)NCBIChiLan1.0ChiLan1.0
F3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1195,918,359 - 95,931,050 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl195,918,502 - 95,931,050 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0197,190,381 - 97,203,076 (-)NCBIMhudiblu_PPA_v0panPan3
F3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1654,709,581 - 54,720,603 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl654,708,471 - 54,720,607 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha657,418,032 - 57,428,969 (+)NCBI
ROS_Cfam_1.0655,085,266 - 55,096,260 (+)NCBI
ROS_Cfam_1.0 Ensembl655,083,526 - 55,096,264 (+)Ensembl
UMICH_Zoey_3.1654,766,195 - 54,777,118 (+)NCBI
UNSW_CanFamBas_1.0654,750,367 - 54,761,295 (+)NCBI
UU_Cfam_GSD_1.0655,203,270 - 55,214,213 (+)NCBI
F3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405058104,300,058 - 104,310,937 (-)NCBI
SpeTri2.0NW_0049365374,637,028 - 4,647,915 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
F3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4122,826,992 - 122,837,672 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14122,827,018 - 122,837,673 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24134,474,466 - 134,479,707 (+)NCBISscrofa10.2Sscrofa10.2susScr3
F3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12038,726,690 - 38,738,457 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2038,726,798 - 38,739,408 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603379,312,870 - 79,325,353 (-)NCBIVero_WHO_p1.0
F3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247423,112,801 - 3,124,301 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247423,112,827 - 3,123,424 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH94643  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22209,838,148 - 209,838,339 (+)MAPPERmRatBN7.2
Rnor_6.02225,321,764 - 225,321,954NCBIRnor6.0
Rnor_5.02243,359,922 - 243,360,112UniSTSRnor5.0
RGSC_v3.42218,382,128 - 218,382,318UniSTSRGSC3.4
Celera2202,268,522 - 202,268,712UniSTS
Cytogenetic Map2q41UniSTS
RH135388  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22209,837,999 - 209,838,212 (+)MAPPERmRatBN7.2
Rnor_6.02225,321,615 - 225,321,827NCBIRnor6.0
Rnor_5.02243,359,773 - 243,359,985UniSTSRnor5.0
RGSC_v3.42218,381,979 - 218,382,191UniSTSRGSC3.4
Celera2202,268,373 - 202,268,585UniSTS
RH 3.4 Map21502.8UniSTS
Cytogenetic Map2q41UniSTS
RH141859  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22209,826,035 - 209,826,244 (+)MAPPERmRatBN7.2
Rnor_6.02225,309,661 - 225,309,869NCBIRnor6.0
Rnor_5.02243,347,014 - 243,347,222UniSTSRnor5.0
RGSC_v3.42218,370,025 - 218,370,233UniSTSRGSC3.4
Celera2202,256,390 - 202,256,598UniSTS
RH 3.4 Map21503.0UniSTS
Cytogenetic Map2q41UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2143157029210020885Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2157142078211086598Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2166539266211539266Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2168594495213594495Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
2293084Iddm26Insulin dependent diabetes mellitus QTL 262.9blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2174930955213594495Rat
2300189Bmd48Bone mineral density QTL 485.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)2179335906224335906Rat
61417Cia10Collagen induced arthritis QTL 103.4joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)2179946951224946951Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2182171407227171407Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2182171407227171407Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2182171407227171407Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2182171407227171407Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2184165752229165752Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2185876309219753474Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2185876309219753474Rat
61458Bp10Blood pressure QTL 103.42arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189020722215287351Rat
1298083Bp158Blood pressure QTL 1582.62arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189020722215287351Rat
1331745Bp203Blood pressure QTL 2034.377arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2189599258218414891Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2189599258226936289Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2189599258234599258Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189599258234599258Rat
2301408Kidm36Kidney mass QTL 360.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2190613715226808892Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
1598813Memor9Memory QTL 92.7exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2199341726234244620Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2200990457245990457Rat
2298479Eau5Experimental allergic uveoretinitis QTL 50.0021uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)2202446871237938339Rat
2299161Iddm33Insulin dependent diabetes mellitus QTL 332.98blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2206312063220876787Rat
631203Gluco14Glucose level QTL 140.0001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)2206665645219003804Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:125
Count of miRNA genes:73
Interacting mature miRNAs:92
Transcripts:ENSRNOT00000015836
Prediction methods:Miranda, 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 3 7 10 5 3 4 62 35 32 11 3
Low 36 47 41 14 41 5 7 12 9 5
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015836   ⟹   ENSRNOP00000015836
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2209,827,130 - 209,838,668 (+)Ensembl
Rnor_6.0 Ensembl2225,310,624 - 225,322,272 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000114365   ⟹   ENSRNOP00000077841
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2209,826,959 - 209,837,017 (+)Ensembl
RefSeq Acc Id: NM_013057   ⟹   NP_037189
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22209,827,061 - 209,838,666 (+)NCBI
Rnor_6.02225,310,686 - 225,322,281 (+)NCBI
Rnor_5.02243,348,430 - 243,360,439 (+)NCBI
RGSC_v3.42218,371,050 - 218,382,645 (+)RGD
Celera2202,257,415 - 202,269,039 (+)RGD
Sequence:
RefSeq Acc Id: XM_039101800   ⟹   XP_038957728
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22209,827,797 - 209,838,666 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_037189   ⟸   NM_013057
- Peptide Label: precursor
- UniProtKB: Q66HI4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000015836   ⟸   ENSRNOT00000015836
RefSeq Acc Id: XP_038957728   ⟸   XM_039101800
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000077841   ⟸   ENSRNOT00000114365
Protein Domains
Fibronectin type-III   Interfer-bind

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P42533-F1-model_v2 AlphaFold P42533 1-295 view protein structure

Transcriptome

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

Promoters
RGD ID:13691719
Promoter ID:EPDNEW_R2244
Type:multiple initiation site
Name:F3_1
Description:coagulation factor III, tissue factor
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_6.02225,310,676 - 225,310,736EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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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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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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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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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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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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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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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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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 225316695 225316696 G A snv FHL/EurMcwi (MCW), GH/OmrMcwi (MCW), SS/JrHsdMcwi (MCW), Buf/N (MCW), M520/N (MCW), MR/N (MCW), WKY/N (MCW), FHL/EurMcwi (RGD), GK/Ox (RGD), LE/Stm (RGD), LEW/Crl (RGD), LEW/NCrlBR (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), LL/MavRrrc (RGD), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD), WKY/NHsd (RGD), BUF/N (2020), BXH2/CubMcwi (2020), FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), HXB10/IpcvMcwi (2019), HXB20/IpcvMcwi (2020), HXB4/IpcvMcwi (2020), LEW/Crl (2019), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF3/Stm (2020), LE/Stm (2019), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), LEXF10A/StmMcwi (2020), M520/NRrrcMcwi (2019), M520/N (2020), MR/N (2020), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SS/JrHsdMcwi (2019), WKY/NCrl (2019), WKY/N (2020)
2 225316825 225316826 G A snv FHL/EurMcwi (MCW), WKY/N (2020), SS/JrHsdMcwi (MCW), Buf/N (MCW), M520/N (MCW), MR/N (MCW), WKY/N (MCW), FHL/EurMcwi (RGD), GK/Ox (RGD), LE/Stm (RGD), LEW/Crl (RGD), LEW/NCrlBR (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), LL/MavRrrc (RGD), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD), WKY/NHsd (RGD), BUF/N (2020), BXH2/CubMcwi (2020), FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), HXB10/IpcvMcwi (2019), HXB20/IpcvMcwi (2020), HXB4/IpcvMcwi (2020), LEW/Crl (2019), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF3/Stm (2020), LE/Stm (2019), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), LEXF10A/StmMcwi (2020), M520/NRrrcMcwi (2019), M520/N (2020), MR/N (2020), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SS/JrHsdMcwi (2019), WKY/NCrl (2019), GH/OmrMcwi (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 243349695 243349696 G A snv LEC/Tj (KyushuU)
2 243354441 243354442 G A snv FHL/EurMcwi (MCW), GH/OmrMcwi (MCW), SS/JrHsdMcwi (MCW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), MR/N (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), BUF/N (KNAW), FHL/EurMcwi (KNAW), GK/Ox (KNAW), LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), LEW/Crl (KNAW), LEW/NCrl (KNAW), M520/N (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), SDLEF7/Barth (UDEL), LE/OrlBarth (UDEL), Crl:SD (UDEL), BUF/MNa (KyushuU), LE/Stm (KyushuU), HTX/Kyo (KyushuU), RCS/Kyo (KyushuU), HWY/Slc (KyushuU), DOB/Oda (KyushuU), KFRS3B/Kyo (KyushuU)
2 243354571 243354572 G A snv FHL/EurMcwi (MCW), KFRS3B/Kyo (KyushuU), SS/JrHsdMcwi (MCW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), MR/N (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), BUF/N (KNAW), FHL/EurMcwi (KNAW), GK/Ox (KNAW), LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), LEW/Crl (KNAW), LEW/NCrl (KNAW), M520/N (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), SDLEF7/Barth (UDEL), LE/OrlBarth (UDEL), Crl:SD (UDEL), BUF/MNa (KyushuU), LE/Stm (KyushuU), HTX/Kyo (KyushuU), RCS/Kyo (KyushuU), HWY/Slc (KyushuU), DOB/Oda (KyushuU), GH/OmrMcwi (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 218377059 218377060 G A snv FHL/EurMcwi (MCW), SS/JrHsdMcwi (MCW), LCR/2Mco (UMich), HCR/2Mco (UMich), LCR/1Mco (UMich), HCR/1Mco (UMich), WKY/NHsd (ICL), WKY/Gcrc (ICL), WKY/NCrl (ICL), SS/JrHsdMcwi (ICL), SS/Jr (ICL), SHRSP/Gcrc (ICL), SHR/NHsd (ICL), SHR/OlaIpcv (ICL), LN/MavRrrc (ICL), LL/MavRrrc (ICL), LH/MavRrrc (ICL), LEW/NCrl (ICL), LEW/Crl (ICL), LE/Stm (ICL), GK/Ox (ICL), FHL/EurMcwi (ICL), GH/OmrMcwi (MCW), SHR/OlaIpcv (KNAW), WKY/N (KNAW), MR/N (KNAW), M520/N (KNAW), LE/Stm (KNAW), BUF/N (KNAW), SS/JrHsdMcwi (MDC), SHRSP/Gcrc (MDC), SHR/OlaIpcv (ICL)
2 218377189 218377190 G A snv FHL/EurMcwi (MCW), LCR/2Mco (UMich), LCR/1Mco (UMich), HCR/1Mco (UMich), WKY/NHsd (ICL), WKY/Gcrc (ICL), WKY/NCrl (ICL), SS/JrHsdMcwi (ICL), SS/Jr (ICL), SHRSP/Gcrc (ICL), SHR/NHsd (ICL), SHR/OlaIpcv (ICL), LN/MavRrrc (ICL), LL/MavRrrc (ICL), LH/MavRrrc (ICL), LEW/NCrl (ICL), LEW/Crl (ICL), LE/Stm (ICL), GK/Ox (ICL), FHL/EurMcwi (ICL), GH/OmrMcwi (MCW), SHR/OlaIpcv (KNAW), WKY/N (KNAW), MR/N (KNAW), M520/N (KNAW), LE/Stm (KNAW), BUF/N (KNAW), SS/JrHsdMcwi (MDC), SHRSP/Gcrc (MDC), SHR/OlaIpcv (ICL), SS/JrHsdMcwi (MCW), HCR/2Mco (UMich)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 209833074 209833075 G A snv BUF/N (2020), BXH2/CubMcwi (2020), WKY/N (2020), WKY/NCrl (2019), SS/JrHsdMcwi (2019), SHR/OlalpcvMcwi (2019), SHRSP/A3NCrl (2019), PVG/Seac (2019), MR/N (2020), M520/N (2020), M520/NRrrcMcwi (2019), LEXF10A/StmMcwi (2020), LN/MavRrrcAek (2020), LL/MavRrrcAek (2020), LH/MavRrrcAek (2020), LE/Stm (2019), LEXF3/Stm (2020), LEXF1C/Stm (2019), LEXF1A/Stm (2019), LEW/Crl (2019), HXB4/IpcvMcwi (2020), HXB20/IpcvMcwi (2020), HXB10/IpcvMcwi (2019), GK/FarMcwi (2019), FXLE18/Stm (2020), FXLE16/Stm (2020)
2 209833204 209833205 G A snv BUF/N (2020), WKY/N (2020), SS/JrHsdMcwi (2019), SHR/OlalpcvMcwi (2019), SHRSP/A3NCrl (2019), PVG/Seac (2019), MR/N (2020), M520/N (2020), M520/NRrrcMcwi (2019), LEXF10A/StmMcwi (2020), LN/MavRrrcAek (2020), LL/MavRrrcAek (2020), LH/MavRrrcAek (2020), LE/Stm (2019), LEXF3/Stm (2020), LEXF1C/Stm (2019), LEXF1A/Stm (2019), LEW/Crl (2019), HXB4/IpcvMcwi (2020), HXB20/IpcvMcwi (2020), HXB10/IpcvMcwi (2019), GK/FarMcwi (2019), FXLE18/Stm (2020), FXLE16/Stm (2020), BXH2/CubMcwi (2020), WKY/NCrl (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2587 AgrOrtholog
BioCyc Gene G2FUF-51391 BioCyc
Ensembl Genes ENSRNOG00000011800 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015836 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015836 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7096602 IMAGE-MGC_LOAD
InterPro FN3_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FN3_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Interferon/interleukin_rcp_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tissue_factor UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tissue_Factor_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25584 UniProtKB/TrEMBL
MGC_CLONE MGC:93621 IMAGE-MGC_LOAD
NCBI Gene 25584 ENTREZGENE
PANTHER PTHR20859:SF22 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Interfer-bind UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tissue_fac UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen F3 PhenoGen
PIRSF Tissue_factor_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS TISSUEFACTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE TISSUE_FACTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49265 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC235743
UniProt P42533 ENTREZGENE
  Q66HI4 ENTREZGENE, UniProtKB/TrEMBL
  TF_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-20 F3  coagulation factor III, tissue factor  F3  coagulation factor III (thromboplastin, tissue factor)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 F3  coagulation factor III (thromboplastin, tissue factor)  F3  coagulation factor III  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 F3  coagulation factor III      Name updated 1299863 APPROVED
2003-04-09 F3  coagulation factor 3     Coagulation factor III (thromboplastin, tissue factor)  Name updated 629478 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process mediates hepatic ischemic reperfusion injury 632791