Serpinc1 (serpin family C member 1) - Rat Genome Database

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Gene: Serpinc1 (serpin family C member 1) Rattus norvegicus
Analyze
Symbol: Serpinc1
Name: serpin family C member 1
RGD ID: 1307404
Description: Enables heparin binding activity and serine-type endopeptidase inhibitor activity. Involved in acute inflammatory response to antigenic stimulus; lactation; and response to nutrient. Located in extracellular space. Used to study thrombosis. Biomarker of familial hyperlipidemia; nephrotic syndrome; and ovarian cancer. Human ortholog(s) of this gene implicated in antithrombin III deficiency; disseminated intravascular coagulation; intermediate coronary syndrome; thrombosis; and toxic shock syndrome. Orthologous to human SERPINC1 (serpin family C member 1); PARTICIPATES IN coagulation cascade pathway; enoxaparin pharmacodynamics pathway; fondaparinux pharmacodynamics pathway; INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: antithrombin III; antithrombin-III; LOC304917; serine (or cysteine) peptidase inhibitor, clade C (antithrombin), member 1; serine (or cysteine) proteinase inhibitor, clade C (antithrombin), member 1; serpin peptidase inhibitor, clade C (antithrombin), member 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Serpinc1em2Mcwi  
Genetic Models: SS.BN-(D13Rat151-D13Rat197)-Serpinc1em2Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21373,257,208 - 73,271,476 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1373,257,179 - 73,284,293 (+)Ensembl
Rnor_6.01378,806,107 - 78,820,375 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1378,805,347 - 78,833,192 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01383,700,761 - 83,715,029 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41376,548,456 - 76,562,724 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11376,562,643 - 76,576,911 (+)NCBI
Celera1373,045,672 - 73,059,940 (+)NCBICelera
Cytogenetic Map13q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
6-aminohexanoate  (ISO)
6-aminohexanoic acid  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
amidotrizoic acid  (ISO)
antimony(0)  (ISO)
antirheumatic drug  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
busulfan  (ISO)
buta-1,3-diene  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
chlorotrianisene  (ISO)
chromium atom  (ISO)
chromium trinitrate  (ISO)
clobazam  (ISO)
clofibrate  (ISO)
clothianidin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cortisol  (ISO)
cyclosporin A  (ISO)
dienogest  (ISO)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
furan  (EXP)
gestodene  (ISO)
heparin  (ISO)
hydrogen peroxide  (ISO)
ioxaglic acid  (ISO)
ivermectin  (ISO)
levonorgestrel  (ISO)
Licochalcone B  (ISO)
medroxyprogesterone acetate  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
metformin  (ISO)
methapyrilene  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
nickel atom  (ISO)
nickel dichloride  (ISO)
nitrofen  (EXP)
norethisterone  (ISO)
norgestimate  (ISO)
O-methyleugenol  (ISO)
oxybenzone  (EXP)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenformin  (ISO)
phenobarbital  (EXP)
phenytoin  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
prednisone  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP,ISO)
sulfasalazine  (ISO)
tamoxifen  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
toremifene  (ISO)
Triptolide  (EXP)
triptonide  (ISO)
valproic acid  (EXP,ISO)
warfarin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
extracellular space  (IBA,IDA,ISO)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Akman S, etal., Pediatr Nephrol. 2008 Aug;23(8):1327-30. doi: 10.1007/s00467-008-0829-7. Epub 2008 May 6.
2. al-Mugeiren MM, etal., Haemostasis. 1996 Nov-Dec;26(6):304-10.
3. Amagasa H, etal., J Atheroscler Thromb. 2005;12(4):191-8.
4. Caglikulekci M, etal., Ann Chir. 2004 Jun;129(5):273-7.
5. Camara-Lemarroy CR, etal., Arch Med Res. 2014 Apr;45(3):210-6. doi: 10.1016/j.arcmed.2014.02.001. Epub 2014 Apr 13.
6. Chan KC, etal., Food Chem Toxicol. 2006 Oct 20;.
7. Chan KC, etal., J Food Sci. 2012 Feb;77(2):H76-80. doi: 10.1111/j.1750-3841.2011.02558.x. Epub 2012 Feb 6.
8. Cicala C, etal., Eur J Pharmacol. 2007 Dec 22;577(1-3):156-61. Epub 2007 Aug 14.
9. Cruz C, etal., Nephron. 1994;68(4):489-96.
10. Czabanka M, etal., J Surg Res. 2006 Dec;136(2):219-26. Epub 2006 Feb 2.
11. Ding Q, etal., Thromb Res. 2013 Sep;132(3):367-73. doi: 10.1016/j.thromres.2013.07.013. Epub 2013 Aug 8.
12. Duru S, etal., Acta Anaesthesiol Scand. 2005 Sep;49(8):1142-8.
13. ElGendy AA and Abbas AM, J Physiol Biochem. 2014 Jun;70(2):535-46. doi: 10.1007/s13105-014-0333-4. Epub 2014 Mar 27.
14. Emerson TE Jr, etal., Am J Med. 1989 Sep 11;87(3B):27S-33S.
15. Erman T, etal., Neurosurgery. 2005 Apr;56(4):828-35.
16. Fujiwara K, etal., J Gastroenterol Hepatol. 1995;10 Suppl 1:S88-91.
17. Garcia-Avello A, etal., Thromb Res. 1998 Jan 15;89(2):59-64.
18. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
19. GOA data from the GO Consortium
20. Gomibuchi H, etal., Exp Anim. 2007 Jan;56(1):1-10.
21. Guzman-De La Garza FJ, etal., Surg Today. 2010 Nov;40(11):1055-62. doi: 10.1007/s00595-009-4177-4. Epub 2010 Nov 3.
22. Hagiwara S, etal., Inflamm Res. 2010 Jul;59(7):511-8. doi: 10.1007/s00011-009-0155-y. Epub 2010 Jan 3.
23. Hagiwara S, etal., Intensive Care Med. 2008 Feb;34(2):361-7. Epub 2007 Oct 17.
24. Hagiwara S, etal., Pancreas. 2009 Oct;38(7):746-51. doi: 10.1097/MPA.0b013e3181aba9fa.
25. Harada N, etal., Thromb Haemost. 2004 Sep;92(3):550-8.
26. Harada N, etal., Thromb Haemost. 2006 Jun;95(6):1011-8.
27. Hassan S, etal., Am J Physiol Heart Circ Physiol. 2007 Jun;292(6):H2959-65. Epub 2007 Feb 9.
28. Huang Y, etal., Eur J Obstet Gynecol Reprod Biol. 2012 Nov;165(1):96-103. doi: 10.1016/j.ejogrb.2012.06.031. Epub 2012 Jul 18.
29. Iba T, etal., Intensive Care Med. 2005 Aug;31(8):1101-8. Epub 2005 Jul 2.
30. Knobl P, etal., Thromb Haemost. 1994 Jun;71(6):692-7.
31. Kung CW, etal., Thromb Res. 2011 Jun;127(6):582-8. Epub 2011 Mar 10.
32. Kurata M, etal., World J Gastroenterol. 2006 Jan 7;12(1):60-5.
33. Lidon RM, etal., Thromb Res. 1993 Oct 1;72(1):23-32.
34. Lin CM, etal., Zhonghua Xue Ye Xue Za Zhi. 2012 Mar;33(3):215-9.
35. Maksan SM, etal., World J Gastroenterol. 2005 Aug 28;11(32):4997-5001.
36. MGD data from the GO Consortium
37. Miyazaki M, etal., World J Gastroenterol. 2012 Apr 28;18(16):1884-91. doi: 10.3748/wjg.v18.i16.1884.
38. Norris LA, Best Pract Res Clin Obstet Gynaecol. 2003 Jun;17(3):369-83.
39. OMIM Disease Annotation Pipeline
40. Picard V, etal., Blood. 2003 Aug 1;102(3):919-25. Epub 2003 Feb 20.
41. Pipeline to import KEGG annotations from KEGG into RGD
42. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
43. Pipeline to import SMPDB annotations from SMPDB into RGD
44. RGD automated data pipeline
45. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
46. RGD automated import pipeline for gene-chemical interactions
47. Sacks SH, etal., J Med Genet. 1988 Jan;25(1):20-4.
48. Safdar H, etal., Blood. 2013 May 23;121(21):4413-6. doi: 10.1182/blood-2012-11-465674. Epub 2013 Apr 2.
49. Sun W, etal., Int Orthop. 2006 Jun;30(3):143-6. doi: 10.1007/s00264-005-0067-6. Epub 2006 Mar 18.
50. Sun W, etal., Zhonghua Yi Xue Za Zhi. 2006 Feb 21;86(7):442-5.
51. Takahara H and Sinohara H, Biochim Biophys Acta. 1980 Mar 14;612(1):185-94.
52. Tsai YC, etal., Eur J Pharmacol. 2010 Sep 1;641(1):67-73. Epub 2010 May 25.
53. Urasoko Y, etal., J Am Assoc Lab Anim Sci. 2012 Mar;51(2):144-9.
54. Wang F, etal., Kidney Int. 2015 Oct;88(4):796-803. doi: 10.1038/ki.2015.176. Epub 2015 Jun 24.
55. Xu Y and Slayter HS, J Histochem Cytochem. 1994 Oct;42(10):1365-76.
56. Zee RY, etal., J Hypertens. 1991 Sep;9(9):825-30.
Additional References at PubMed
PMID:1695900   PMID:12477932   PMID:15853774   PMID:16502470   PMID:18923394   PMID:19295486   PMID:22516433   PMID:23376485   PMID:23533145   PMID:28767184  


Genomics

Comparative Map Data
Serpinc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21373,257,208 - 73,271,476 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1373,257,179 - 73,284,293 (+)Ensembl
Rnor_6.01378,806,107 - 78,820,375 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1378,805,347 - 78,833,192 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01383,700,761 - 83,715,029 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41376,548,456 - 76,562,724 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11376,562,643 - 76,576,911 (+)NCBI
Celera1373,045,672 - 73,059,940 (+)NCBICelera
Cytogenetic Map13q22NCBI
SERPINC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1173,903,800 - 173,917,327 (-)EnsemblGRCh38hg38GRCh38
GRCh381173,903,800 - 173,917,327 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371173,872,938 - 173,886,465 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361172,139,565 - 172,153,096 (-)NCBINCBI36hg18NCBI36
Build 341170,604,599 - 170,618,130NCBI
Celera1146,982,409 - 146,995,977 (-)NCBI
Cytogenetic Map1q25.1NCBI
HuRef1145,098,064 - 145,111,634 (-)NCBIHuRef
CHM1_11175,295,382 - 175,308,956 (-)NCBICHM1_1
Serpinc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391160,806,153 - 160,830,113 (+)NCBIGRCm39mm39
GRCm39 Ensembl1160,806,155 - 160,833,433 (+)Ensembl
GRCm381160,978,583 - 161,002,543 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1160,978,585 - 161,005,863 (+)EnsemblGRCm38mm10GRCm38
MGSCv371162,908,737 - 162,933,146 (+)NCBIGRCm37mm9NCBIm37
MGSCv361162,824,166 - 162,839,687 (+)NCBImm8
Celera1163,418,142 - 163,442,757 (+)NCBICelera
Cytogenetic Map1H2.1NCBI
cM Map169.75NCBI
Serpinc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540614,024,313 - 14,035,948 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540614,024,183 - 14,036,206 (-)NCBIChiLan1.0ChiLan1.0
SERPINC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11153,126,031 - 153,139,369 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1153,126,031 - 153,139,369 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01149,421,737 - 149,435,301 (-)NCBIMhudiblu_PPA_v0panPan3
SERPINC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1725,322,668 - 25,333,022 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl725,316,129 - 25,332,987 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha724,855,807 - 24,866,147 (+)NCBI
ROS_Cfam_1.0725,073,311 - 25,083,857 (+)NCBI
UMICH_Zoey_3.1724,993,149 - 25,003,688 (+)NCBI
UNSW_CanFamBas_1.0725,074,836 - 25,085,380 (+)NCBI
UU_Cfam_GSD_1.0725,220,039 - 25,230,581 (+)NCBI
Serpinc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934496,134,261 - 96,146,884 (+)NCBI
SpeTri2.0NW_00493648113,981,014 - 13,993,750 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SERPINC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9116,181,980 - 116,193,201 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19116,181,988 - 116,193,100 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29127,817,120 - 127,828,237 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SERPINC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12555,271,823 - 55,289,855 (+)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605556,831,874 - 56,851,329 (+)NCBIVero_WHO_p1.0
Serpinc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247717,955,778 - 7,966,637 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
Serpinc1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21373,263,427 - 73,264,975 (+)MAPPERmRatBN7.2
Rnor_6.01378,812,327 - 78,813,874NCBIRnor6.0
Rnor_5.01383,706,981 - 83,708,528UniSTSRnor5.0
RGSC_v3.41376,554,676 - 76,556,223UniSTSRGSC3.4
Celera1373,051,892 - 73,053,439UniSTS
Cytogenetic Map13q22UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
4889861Pur29Proteinuria QTL 2913.80.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
2303028Bp329Blood pressure QTL 329arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)135849787273485113Rat
724564Uae11Urinary albumin excretion QTL 115.7urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)135949252277046890Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)135987440885581182Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
8655951Rf63Renal function QTL 6312.2blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)136906051977046890Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)136906051986800898Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136906051986800898Rat
1300166Kidm6Kidney mass QTL 63.93kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)136906051986800898Rat


Genetic Models
This gene Serpinc1 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:84
Interacting mature miRNAs:87
Transcripts:ENSRNOT00000003748, ENSRNOT00000046512
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 23 17 17
Medium 25 24 24 15 3 1
Low 3 11 15 19 8 9 11 14 19 10 8
Below cutoff 6 2 29 4 18

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001012027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC113837 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY321346 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC088467 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209388 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209496 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211135 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218285 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218482 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218515 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000003748   ⟹   ENSRNOP00000003748
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1373,258,468 - 73,271,478 (+)Ensembl
Rnor_6.0 Ensembl1378,805,347 - 78,820,381 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000046512
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1373,262,260 - 73,284,293 (+)Ensembl
Rnor_6.0 Ensembl1378,811,159 - 78,833,192 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076043   ⟹   ENSRNOP00000067902
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1373,257,179 - 73,265,339 (+)Ensembl
Rnor_6.0 Ensembl1378,812,394 - 78,814,347 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000115784   ⟹   ENSRNOP00000077314
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1373,257,184 - 73,271,478 (+)Ensembl
RefSeq Acc Id: NM_001012027   ⟹   NP_001012027
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21373,257,208 - 73,271,476 (+)NCBI
Rnor_6.01378,806,107 - 78,820,375 (+)NCBI
Rnor_5.01383,700,761 - 83,715,029 (+)NCBI
RGSC_v3.41376,548,456 - 76,562,724 (+)RGD
Celera1373,045,672 - 73,059,940 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001012027 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH88467 (Get FASTA)   NCBI Sequence Viewer  
  AAP86278 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001012027   ⟸   NM_001012027
- Peptide Label: precursor
- UniProtKB: Q5M7T5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067902   ⟸   ENSRNOT00000076043
RefSeq Acc Id: ENSRNOP00000003748   ⟸   ENSRNOT00000003748
RefSeq Acc Id: ENSRNOP00000077314   ⟸   ENSRNOT00000115784
Protein Domains
SERPIN

Transcriptome

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

Promoters
RGD ID:13698928
Promoter ID:EPDNEW_R9453
Type:initiation region
Name:Serpinc1_1
Description:serpin family C member 1
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_6.01378,806,124 - 78,806,184EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
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)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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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
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)
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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
SHR/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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/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
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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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: 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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307404 AgrOrtholog
Ensembl Genes ENSRNOG00000002783 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000003748 UniProtKB/TrEMBL
  ENSRNOP00000067902 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003748 UniProtKB/TrEMBL
  ENSRNOT00000076043 UniProtKB/TrEMBL
Gene3D-CATH 2.30.39.10 UniProtKB/TrEMBL
  3.30.497.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7127992 IMAGE-MGC_LOAD
InterPro Antithrombin_domain UniProtKB/TrEMBL
  Protease_inhib_I4_serpin UniProtKB/TrEMBL
  Protease_inhib_I4_serpin_CS UniProtKB/TrEMBL
  Protease_inhib_serpin_AT-III UniProtKB/TrEMBL
  Sepin_dom UniProtKB/TrEMBL
  Serpin_sf UniProtKB/TrEMBL
  Serpin_sf_1 UniProtKB/TrEMBL
  Serpin_sf_2 UniProtKB/TrEMBL
KEGG Report rno:304917 UniProtKB/TrEMBL
MGC_CLONE MGC:95125 IMAGE-MGC_LOAD
NCBI Gene 304917 ENTREZGENE
PANTHER Prot_inh_serpin UniProtKB/TrEMBL
  PTHR11461:SF53 UniProtKB/TrEMBL
Pfam Serpin UniProtKB/TrEMBL
PhenoGen Serpinc1 PhenoGen
PROSITE SERPIN UniProtKB/TrEMBL
SMART SERPIN UniProtKB/TrEMBL
Superfamily-SCOP Prot_inh_serpin UniProtKB/TrEMBL
UniProt A0A096MIW4_RAT UniProtKB/TrEMBL
  Q5M7T5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-13 Serpinc1  serpin family C member 1  Serpinc1  serpin peptidase inhibitor, clade C (antithrombin), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Serpinc1  serine (or cysteine) peptidase inhibitor, clade C (antithrombin), member 1    serine (or cysteine) proteinase inhibitor, clade C (antithrombin), member 1  Name updated 1299863 APPROVED
2005-12-06 Serpinc1  serine (or cysteine) proteinase inhibitor, clade C (antithrombin), member 1  Serpinc1_predicted  serine (or cysteine) proteinase inhibitor, clade C (antithrombin), member 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Serpinc1_predicted  serine (or cysteine) proteinase inhibitor, clade C (antithrombin), member 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED