Thbd (thrombomodulin) - Rat Genome Database
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Gene: Thbd (thrombomodulin) Rattus norvegicus
Analyze
Symbol: Thbd
Name: thrombomodulin
RGD ID: 621299
Description: Predicted to have calcium ion binding activity and transmembrane signaling receptor activity. Involved in response to X-ray; response to cAMP; and response to lipopolysaccharide. Localizes to apicolateral plasma membrane; extracellular space; and vacuolar membrane. Used to study acute kidney failure. Biomarker of adult respiratory distress syndrome; hypertension; ischemia; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in several diseases, including acute kidney failure; atypical hemolytic-uremic syndrome; cerebrovascular disease (multiple); rheumatoid arthritis; and thrombophilia (multiple). Orthologous to human THBD (thrombomodulin); PARTICIPATES IN protein C anticoagulant pathway; coagulation cascade pathway; complement system pathway; INTERACTS WITH (S)-colchicine; 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: thrombomdulin
Orthologs:
Homo sapiens (human) : THBD (thrombomodulin)  HGNC  Alliance
Mus musculus (house mouse) : Thbd (thrombomodulin)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Thbd (thrombomodulin)
Pan paniscus (bonobo/pygmy chimpanzee) : THBD (thrombomodulin)
Canis lupus familiaris (dog) : THBD (thrombomodulin)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Thbd (thrombomodulin)
Sus scrofa (pig) : THBD (thrombomodulin)
Chlorocebus sabaeus (African green monkey) : THBD (thrombomodulin)
Heterocephalus glaber (naked mole-rat) : Thbd (thrombomodulin)
more info ...
Allele / Splice: Thbdm1Mcwi  
Genetic Models: SS-Thbdm1Mcwi
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.03142,748,673 - 142,752,325 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3142,748,674 - 142,752,325 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03149,159,895 - 149,163,547 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43137,158,955 - 137,162,607 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13137,064,528 - 137,068,180 (-)NCBI
Celera3134,707,185 - 134,710,838 (-)NCBICelera
Cytogenetic Map3q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute kidney failure  (IDA,ISO)
Acute Liver Failure  (IEP)
Acute Lung Injury  (IEP,ISO)
acute promyelocytic leukemia  (ISO)
adult respiratory distress syndrome  (IEP,ISO)
Alzheimer's disease  (ISO)
ankylosing spondylitis  (ISO)
asthma  (ISO)
atypical hemolytic-uremic syndrome  (ISO)
B-Cell Chronic Lymphocytic Leukemia  (ISO)
Brain Injuries  (ISO)
carotid artery thrombosis  (ISO)
cerebral infarction  (ISO)
Cerebral Small Vessel Diseases  (ISO)
coronary artery disease  (ISO)
Coronary Disease  (ISO)
Crohn's disease  (ISO)
dermatomyositis  (ISO)
disseminated intravascular coagulation  (ISO)
Drug-Related Side Effects and Adverse Reactions  (ISO)
end stage renal disease  (ISO)
Endotoxemia  (IEP,ISO)
Endotoxin-Induced Uveitis  (ISO)
Experimental Arthritis  (ISO)
Experimental Liver Cirrhosis  (IEP,ISO)
familial combined hyperlipidemia  (ISO)
familial Mediterranean fever  (ISO)
granulomatosis with polyangiitis  (ISO)
Habitual Abortions  (ISO)
Heat Stroke  (ISO)
hemolytic-uremic syndrome  (ISO)
hemorrhagic disease  (ISO)
Hyperalgesia  (ISO)
hypertension  (IEP,ISO)
hypothyroidism  (ISO)
idiopathic pulmonary fibrosis  (ISO)
impotence  (ISO)
Inflammation  (ISO)
Insulin Resistance  (ISO)
ischemia  (IEP)
juvenile rheumatoid arthritis  (ISO)
liver disease  (ISO)
lung non-small cell carcinoma  (ISO)
Metabolic Syndrome  (ISO)
Multiple Organ Failure  (ISO)
myocardial infarction  (ISO)
obesity  (ISO)
Painful Neuropathy  (ISO)
pulmonary embolism  (ISO)
pulmonary hypertension  (ISO)
Reperfusion Injury  (ISO)
rheumatoid arthritis  (ISO)
Sepsis  (IEP)
severe acute respiratory syndrome  (ISO)
Spinal Cord Injuries  (ISO)
Stomach Neoplasms  (ISO)
Stroke  (ISO)
Systemic Inflammatory Response Syndrome  (ISO)
systemic lupus erythematosus  (ISO)
Thromboembolism  (ISO)
thrombophilia  (ISO)
thrombophilia due to thrombomodulin defect  (ISO)
thrombosis  (ISO)
thrombotic thrombocytopenic purpura  (ISO)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (IEP,ISO)
ulcerative colitis  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(R)-mevalonic acid  (ISO)
(S)-colchicine  (EXP)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
1-nitropyrene  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3-methylcholanthrene  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
amphibole asbestos  (EXP)
antirheumatic drug  (ISO)
aripiprazole  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butan-1-ol  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
candesartan  (EXP)
carbon nanotube  (ISO)
carbonyl sulfide  (EXP)
carmustine  (ISO)
choline  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (ISO)
crotonaldehyde  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
ethanol  (EXP)
fluoranthene  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
gestodene  (ISO)
glucose  (ISO)
hydralazine  (EXP)
indometacin  (ISO)
isobutanol  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lipopolysaccharide  (ISO)
LY294002  (ISO)
methotrexate  (ISO)
methyl methacrylate  (ISO)
methylarsonic acid  (ISO)
methylisothiazolinone  (ISO)
N-nitrosodimethylamine  (EXP)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (ISO)
nitric oxide  (EXP)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
paclitaxel  (ISO)
paracetamol  (ISO)
paraquat  (EXP,ISO)
paricalcitol  (ISO)
pentachlorophenol  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
phosphorus atom  (ISO)
phosphorus(.)  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
pravastatin  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (EXP,ISO)
propanal  (ISO)
rac-lactic acid  (ISO)
resveratrol  (EXP,ISO)
SB 431542  (ISO)
selenium atom  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
streptozocin  (EXP)
tamibarotene  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
tremolite asbestos  (ISO)
triclosan  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
Tungsten carbide  (ISO)
valproic acid  (ISO)
venlafaxine hydrochloride  (EXP)
vincaleukoblastine  (EXP)
vinclozolin  (EXP)
vincristine  (ISO)
vitamin E  (ISO)
zaragozic acid A  (EXP,ISO)
zinc atom  (EXP)
zinc sulfate  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Alioglu B, etal., J Clin Res Pediatr Endocrinol. 2012 Sep;4(3):146-50. doi: 10.4274/Jcrpe.652.
2. Aso Y, etal., Exp Clin Endocrinol Diabetes. 2001;109(4):210-6.
3. Aue G, etal., Am J Hematol. 2011 Oct;86(10):835-40. doi: 10.1002/ajh.22114. Epub 2011 Aug 2.
4. Boehme MW, etal., Rheumatol Int. 2006 Feb;26(4):340-7. Epub 2005 Feb 8.
5. Borroni B, etal., J Neurol Sci. 2005 Mar 15;229-230:211-3. Epub 2004 Dec 8.
6. Bosco C, etal., Histol Histopathol. 2005 Oct;20(4):1045-55.
7. Bouwens EA, etal., J Thromb Haemost. 2013 Jun;11 Suppl 1:242-53. doi: 10.1111/jth.12247.
8. Cao Y, etal., Gene. 2013 Nov 10;530(2):248-52. doi: 10.1016/j.gene.2013.07.080. Epub 2013 Aug 14.
9. Cole JW, etal., BMC Neurol. 2004 Dec 1;4(1):21.
10. Collard HR, etal., Am J Physiol Lung Cell Mol Physiol. 2010 Jul;299(1):L3-7. Epub 2010 Apr 23.
11. Cone JB, etal., J Trauma. 2003 Apr;54(4):731-6; discussion 736.
12. Dahlback B and Villoutreix BO, FEBS Lett. 2005 Jun 13;579(15):3310-6. Epub 2005 Mar 13.
13. Daimon T and Okuma Y, Histochem Cell Biol. 2004 Apr;121(4):311-7. Epub 2004 Mar 18.
14. Daimon T, etal., Histochem Cell Biol. 1997 Aug;108(2):121-31.
15. Davis R, etal., Clin Appl Thromb Hemost. 2011 Aug 25.
16. De Angelis L, etal., Diabetologia. 2001 Sep;44(9):1155-60.
17. Delvaeye M, etal., N Engl J Med. 2009 Jul 23;361(4):345-57. doi: 10.1056/NEJMoa0810739.
18. Ding BS, etal., Am J Respir Crit Care Med. 2009 Aug 1;180(3):247-56. Epub 2009 Apr 2.
19. el-Gamal YM, etal., Pediatr Allergy Immunol. 2004 Jun;15(3):270-7.
20. Esmon CT, Chest. 2003 Sep;124(3 Suppl):26S-32S.
21. Festoff BW, etal., J Neurotrauma. 2004 Jul;21(7):907-22.
22. Georgieva AM, etal., Atherosclerosis. 2004 Aug;175(2):345-51.
23. Giwa MO, etal., Neurology. 2011 Dec 14.
24. Gracia-Sancho J, etal., Gut. 2011 Apr;60(4):517-24. Epub 2010 Nov 26.
25. Hagiwara S, etal., Shock. 2010 Mar;33(3):282-8.
26. Hagiwara S, etal., Shock. 2010 Oct;34(4):402-6.
27. Haidara MA, etal., Med Sci Monit. 2004 Feb;10(2):BR41-6.
28. Hasegawa N, etal., Am J Respir Crit Care Med. 1996 Jun;153(6 Pt 1):1831-7.
29. Hjerkinn EM, etal., Scand J Clin Lab Invest. 2005;65(3):201-9.
30. Ikezoe T, etal., Eur J Haematol. 2013 Nov;91(5):442-7. doi: 10.1111/ejh.12188. Epub 2013 Oct 1.
31. Jin H, etal., FEBS Lett. 2011 Nov 4;585(21):3457-64. doi: 10.1016/j.febslet.2011.10.002. Epub 2011 Oct 10.
32. Konstantoulas CJ, etal., Thromb Haemost. 2007 Jan;97(1):161-4.
33. Kume M, etal., J Hepatol. 2003 Jan;38(1):9-17.
34. Kuryliszyn-Moskal A, etal., J Rheumatol. 2008 Jul;35(7):1307-13. Epub 2008 May 15.
35. Li YP, etal., Zhongguo Wei Zhong Bing Ji Jiu Yi Xue. 2007 Jun;19(6):365-8.
36. Liu PL, etal., Mol Carcinog. 2010 Oct;49(10):874-81.
37. Liu ZH, etal., Biomed Environ Sci. 2005 Aug;18(4):260-4.
38. Lu ZQ, etal., Zhonghua Lao Dong Wei Sheng Zhi Ye Bing Za Zhi. 2009 Aug;27(8):453-6.
39. Meyer AA, etal., Pediatrics. 2006 May;117(5):1560-7.
40. MGD data from the GO Consortium
41. Miyamoto S, etal., Hepatol Res. 2002 Mar;22(3):206-213.
42. Nagato M, etal., Crit Care Med. 2009 Jul;37(7):2181-6.
43. Nakahara M, etal., PLoS One. 2013 Sep 30;8(9):e75961. doi: 10.1371/journal.pone.0075961. eCollection 2013.
44. NCBI rat LocusLink and RefSeq merged data July 26, 2002
45. Noris M, etal., Clin J Am Soc Nephrol. 2010 Oct;5(10):1844-59. doi: 10.2215/CJN.02210310. Epub 2010 Jul 1.
46. Ogura H, etal., J Trauma. 2004 Apr;56(4):823-30; discussion 830-1.
47. OMIM Disease Annotation Pipeline
48. Ozaki T, etal., Nephrol Dial Transplant. 2008 Jan;23(1):110-9. Epub 2007 Sep 5.
49. Ozbalkan Z, etal., Clin Exp Rheumatol. 2006 Sep-Oct;24(5 Suppl 42):S95-8.
50. Pilarska E, etal., Med Sci Monit. 2010 Jul;16(7):CR348-51.
51. Pipeline to import KEGG annotations from KEGG into RGD
52. Raife TJ, etal., Arterioscler Thromb Vasc Biol. 2011 Nov;31(11):2509-17.
53. Rajashekhar G, etal., Am J Physiol Renal Physiol. 2011 Nov 30.
54. RGD automated data pipeline
55. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
56. RGD automated import pipeline for gene-chemical interactions
57. RGD comprehensive gene curation
58. Ruef J, etal., Scand Cardiovasc J. 2006 Oct;40(5):274-9.
59. Sawada K, etal., Clin Exp Hypertens. 2003 Feb;25(2):73-84.
60. Scaldaferri F, etal., J Clin Invest. 2007 Jul;117(7):1951-60.
61. Sharfuddin AA, etal., J Am Soc Nephrol. 2009 Mar;20(3):524-34. Epub 2009 Jan 28.
62. Shen GL, etal., Neuropathology. 2007 Aug;27(4):309-13.
63. Starr ME, etal., Blood. 2010 Jun 10;115(23):4886-93. Epub 2010 Mar 26.
64. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
65. Su EJ, etal., J Thromb Haemost. 2011 Jun;9(6):1174-82. doi: 10.1111/j.1538-7836.2011.04269.x.
66. Sunagawa M, etal., Endothelium. 2006 Sep-Oct;13(5):325-33.
67. Tabuchi N, etal., Eur J Cardiothorac Surg. 2004 Nov;26(5):995-1001.
68. Takagi T, etal., Am J Respir Crit Care Med. 2011 Jan 1;183(1):31-42. Epub 2010 Aug 13.
69. Tanaka J, etal., Br J Pharmacol. 2013 Nov;170(6):1233-41. doi: 10.1111/bph.12396.
70. Taylan A, etal., Clin Rheumatol. 2012 Jan;31(1):23-8. Epub 2011 May 10.
71. Thorand B, etal., Diabetologia. 2007 Mar;50(3):545-8. Epub 2006 Dec 29.
72. Uehara S, etal., Thromb Res. 2001 Dec 1;104(5):325-32.
73. Uygur F, etal., Ann Plast Surg. 2009 Jun;62(6):693-8.
74. Van de Wouwer M, etal., J Thromb Haemost. 2006 Aug;4(8):1813-24.
75. Vegh J, etal., Scand J Immunol. 2006 Jul;64(1):69-76.
76. Wang J, etal., Am J Pathol 2002 Jun;160(6):2063-72.
77. Wang J, etal., DNA Res 1999 Feb 26;6(1):57-62.
78. Wojtkielewicz K, etal., Med Wieku Rozwoj. 2006 Jul-Sep;10(3 Pt 2):893-902.
79. Yamakawa K, etal., Crit Care. 2011;15(3):R123. Epub 2011 May 11.
80. Yamamoto R and Aso Y, Diabetes Care. 2006 Apr;29(4):928-30.
81. Yamashita T, etal., Circulation 2003 Nov 18;108(20):2450-2. Epub 2003 Nov 10.
82. Yokota H, etal., Neurol Med Chir (Tokyo). 2007 Sep;47(9):383-8; discussion 388.
83. Zoja C, etal., J Immunol. 2012 Oct 1;189(7):3661-8. Epub 2012 Aug 31.
84. Zycinska K, etal., Eur J Med Res. 2009 Dec 7;14 Suppl 4:268-70.
Additional References at PubMed
PMID:7846065   PMID:10565546   PMID:17379830   PMID:19299737   PMID:19680809   PMID:20472895   PMID:25109347   PMID:26923576  


Genomics

Comparative Map Data
Thbd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.03142,748,673 - 142,752,325 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3142,748,674 - 142,752,325 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03149,159,895 - 149,163,547 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43137,158,955 - 137,162,607 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13137,064,528 - 137,068,180 (-)NCBI
Celera3134,707,185 - 134,710,838 (-)NCBICelera
Cytogenetic Map3q41NCBI
THBD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2023,045,633 - 23,049,672 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl2023,045,633 - 23,049,741 (-)EnsemblGRCh38hg38GRCh38
GRCh382023,045,633 - 23,049,672 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372023,026,270 - 23,030,301 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362022,974,270 - 22,978,301 (-)NCBINCBI36hg18NCBI36
Build 342022,974,270 - 22,978,301NCBI
Celera2023,099,650 - 23,103,681 (-)NCBI
Cytogenetic Map20p11.21NCBI
HuRef2022,987,792 - 22,991,823 (-)NCBIHuRef
CHM1_12023,026,970 - 23,031,001 (-)NCBICHM1_1
Thbd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392148,246,391 - 148,250,108 (-)NCBI
GRCm382148,404,471 - 148,408,188 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2148,404,466 - 148,408,188 (-)EnsemblGRCm38mm10GRCm38
MGSCv372148,230,207 - 148,233,924 (-)NCBIGRCm37mm9NCBIm37
MGSCv362148,095,912 - 148,099,544 (-)NCBImm8
Celera2149,679,568 - 149,683,285 (-)NCBICelera
Cytogenetic Map2G3NCBI
cM Map273.45NCBI
Thbd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541530,222,830 - 30,226,406 (-)NCBIChiLan1.0ChiLan1.0
THBD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12023,343,758 - 23,347,966 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2023,345,917 - 23,347,812 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02022,992,341 - 22,996,415 (-)NCBI
THBD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl24599,773 - 601,649 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.124599,773 - 601,649 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Thbd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366202,563,900 - 2,568,117 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
THBD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1730,221,819 - 30,230,177 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11730,219,870 - 30,223,499 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21734,274,132 - 34,277,761 (-)NCBISscrofa10.2Sscrofa10.2susScr3
THBD
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl252,043,746 - 52,045,626 (-)Ensembl
ChlSab1.1252,041,950 - 52,045,946 (-)NCBI
Thbd
(Heterocephalus glaber - naked mole-rat)
No map positions available.

Position Markers
RH128562  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03142,749,818 - 142,750,011NCBIRnor6.0
Rnor_5.03149,161,040 - 149,161,233UniSTSRnor5.0
RGSC_v3.43137,160,100 - 137,160,293UniSTSRGSC3.4
Celera3134,708,330 - 134,708,523UniSTS
Cytogenetic Map3q41UniSTS
RH 3.4 Map31094.6UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)330846101172879276Rat
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
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
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
1581546Pur13Proteinuria QTL 132.930.0335total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)381136227154416635Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)399465522168732722Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)3101058963146058963Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)3102152812155263151Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)3102466149147466149Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)3103141814176418101Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)3103141814176418101Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3103141814176418101Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)3103141944170934860Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3114376250159376250Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3119471263164471263Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3125848628170848628Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3126575595153412619Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3126575595165355668Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3128986468173986468Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3129787213177699992Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3130006659175006659Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3132875075176418101Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3136876155170935007Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3138374177177699992Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3138374177177699992Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3139578365177699992Rat


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

Predicted Target Of
Summary Value
Count of predictions:108
Count of miRNA genes:85
Interacting mature miRNAs:93
Transcripts:ENSRNOT00000006200
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 33 5 13 7 7 3 22 28 11 7
Low 3 10 52 41 6 41 1 4 71 13 13 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000006200   ⟹   ENSRNOP00000006200
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3142,748,674 - 142,752,325 (-)Ensembl
RefSeq Acc Id: NM_031771   ⟹   NP_113959
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03142,748,673 - 142,752,325 (-)NCBI
Rnor_5.03149,159,895 - 149,163,547 (-)NCBI
RGSC_v3.43137,158,955 - 137,162,607 (-)RGD
Celera3134,707,185 - 134,710,838 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_113959 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB80760 (Get FASTA)   NCBI Sequence Viewer  
  AAB80923 (Get FASTA)   NCBI Sequence Viewer  
  AAH70903 (Get FASTA)   NCBI Sequence Viewer  
  EDL95102 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_113959   ⟸   NM_031771
- Peptide Label: precursor
- UniProtKB: O35370 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000006200   ⟸   ENSRNOT00000006200
Protein Domains
C-type lectin   EGF-like

Transcriptome

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

Promoters
RGD ID:13692495
Promoter ID:EPDNEW_R3020
Type:single initiation site
Name:Thbd_1
Description:thrombomodulin
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_6.03142,752,344 - 142,752,404EPDNEW

Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621299 AgrOrtholog
Ensembl Genes ENSRNOG00000004687 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000006200 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006200 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7100705 IMAGE-MGC_LOAD
InterPro C-type_lectin UniProtKB/TrEMBL
  C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin_fold UniProtKB/TrEMBL
  CD93/CD141 UniProtKB/TrEMBL
  EG-like_dom UniProtKB/TrEMBL
  EGF-like_Ca-bd UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/TrEMBL
  Growth_fac_rcpt_N_dom UniProtKB/TrEMBL
  Tme5_EGF-like UniProtKB/TrEMBL
KEGG Report rno:83580 UniProtKB/TrEMBL
MGC_CLONE MGC:91620 IMAGE-MGC_LOAD
NCBI Gene 83580 ENTREZGENE
PANTHER PTHR24036:SF5 UniProtKB/TrEMBL
Pfam EGF_CA UniProtKB/TrEMBL
  Lectin_C UniProtKB/TrEMBL
  Tme5_EGF_like UniProtKB/TrEMBL
PhenoGen Thbd PhenoGen
PROSITE ASX_HYDROXYL UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
SMART CLECT UniProtKB/TrEMBL
  EGF UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
Superfamily-SCOP C-type_lectin_fold UniProtKB/TrEMBL
  SSF57184 UniProtKB/TrEMBL
UniGene Rn.88295 ENTREZGENE
UniProt O35370 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Thbd  thrombomodulin      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Thbd  thrombomodulin      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_process may be involved in embryonic development, several inflammatory conditions and in tumor biology 634506
gene_regulation activity deficiency results from intestinal irradiation 634507
 



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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.