Mmp14 (matrix metallopeptidase 14) - Rat Genome Database

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Gene: Mmp14 (matrix metallopeptidase 14) Rattus norvegicus
Analyze
Symbol: Mmp14
Name: matrix metallopeptidase 14
RGD ID: 620198
Description: Enables integrin binding activity. Involved in several processes, including gonad development; negative regulation of focal adhesion assembly; and response to odorant. Located in cytoplasm. Used to study ischemia. Biomarker of IgA glomerulonephritis; anti-basement membrane glomerulonephritis; artery disease (multiple); brain ischemia; and congestive heart failure. Human ortholog(s) of this gene implicated in Winchester syndrome; esophagus adenocarcinoma; and myocardial infarction. Orthologous to human MMP14 (matrix metallopeptidase 14); PARTICIPATES IN hypoxia inducible factor pathway; gonadotropin-releasing hormone signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,4,7,8-Pentachlorodibenzofuran; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: matrix metallopeptidase 14 (membrane-inserted); matrix metalloproteinase 14 (membrane-inserted); matrix metalloproteinase 14 membrane-inserted; matrix metalloproteinase 14, membrane-inserted; matrix metalloproteinase-14; membrane type 1-matrix metalloproteinase; membrane-type matrix metalloproteinase 1; membrane-type-1 matrix metalloproteinase; MMP-14; MT-MMP 1; Mt1-mmp; MT1MMP; MTMMP1
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
mRatBN7.21527,887,795 - 27,897,020 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1527,887,727 - 27,899,864 (+)Ensembl
Rnor_6.01533,074,441 - 33,083,666 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1533,074,441 - 33,083,655 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01536,960,282 - 36,969,507 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41532,493,852 - 32,503,077 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11532,509,551 - 32,518,777 (+)NCBI
Celera1527,470,861 - 27,480,086 (+)NCBICelera
Cytogenetic Map15p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,3,4,7,8-Pentachlorodibenzofuran  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-dinitrotoluene  (EXP)
2-butoxyethanol  (ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-Nerolidylcatechol  (ISO)
4-vinylcyclohexene dioxide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP)
acetamide  (EXP)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
ageladine A  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
aminoguanidine  (EXP)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
aristolochic acid  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (EXP,ISO)
barium(0)  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
berberine  (EXP)
beta-aminopropionitrile  (ISO)
beta-naphthoflavone  (EXP)
bexarotene  (EXP)
biochanin A  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisdemethoxycurcumin  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium dichloride  (ISO)
capsaicin  (ISO)
carbon nanotube  (ISO)
carbonyl sulfide  (EXP)
CGS-21680  (ISO)
chrysene  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (EXP)
cumene  (ISO)
Cuprizon  (EXP)
curcumin  (EXP,ISO)
cyclosporin A  (ISO)
cysteamine  (ISO)
D-glucose  (ISO)
decabromodiphenyl ether  (EXP)
demethoxycurcumin  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (EXP,ISO)
dibutyl phthalate  (EXP,ISO)
dichlorine  (EXP)
diethyl phthalate  (ISO)
dihydroartemisinin  (ISO)
diisobutyl phthalate  (ISO)
diisononyl phthalate  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (EXP,ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
erlotinib hydrochloride  (ISO)
ethanol  (ISO)
finasteride  (EXP)
flutamide  (EXP)
folic acid  (ISO)
folpet  (ISO)
furan  (EXP)
gadolinium trichloride  (EXP)
Geniposide pentaacetate  (EXP)
genistein  (ISO)
glucose  (ISO)
graphene oxide  (ISO)
heparin  (ISO)
hydrogen cyanide  (ISO)
hydroquinone  (ISO)
indole-3-methanol  (EXP)
indometacin  (EXP)
Isoangustone A  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
ketamine  (EXP)
lead diacetate  (EXP)
lipopolysaccharide  (ISO)
LY294002  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (EXP)
melatonin  (EXP)
mercury dibromide  (ISO)
metformin  (ISO)
methoxychlor  (ISO)
methylmercury chloride  (ISO)
mifepristone  (ISO)
mitomycin C  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
nickel sulfate  (ISO)
omeprazole  (EXP)
oxaliplatin  (EXP)
ozone  (EXP)
panobinostat  (ISO)
paracetamol  (ISO)
paraquat  (EXP,ISO)
pentane-2,3-dione  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
phenobarbital  (EXP,ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
piperine  (ISO)
pirinixic acid  (EXP)
potassium cyanide  (ISO)
potassium dichromate  (ISO)
pravastatin  (EXP)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
propiconazole  (ISO)
rac-lactic acid  (ISO)
rotenone  (EXP)
Salinomycin  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
serpentine asbestos  (ISO)
silibinin  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sulindac  (EXP)
sunitinib  (ISO)
tamoxifen  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
titanium dioxide  (EXP,ISO)
topotecan  (EXP)
Trapidil  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
triticonazole  (EXP)
tyrphostin AG 1478  (ISO)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vorinostat  (ISO)
Y-27632  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Akiyama M, etal., Virchows Arch. 2006 Jun;448(6):811-21. Epub 2006 Apr 12.
2. Alvarez J, etal., J Bone Miner Res. 2005 Jun;20(6):1011-21. Epub 2005 Feb 7.
3. Annabi B, etal., J Vasc Surg. 2002 Mar;35(3):539-46.
4. Bruno G, etal., J Neurosurg. 1998 Sep;89(3):431-40.
5. Choi EY, etal., Exp Mol Med. 2002 Dec 31;34(6):391-400.
6. Churchill JA, etal., J Pediatr Surg. 2011 Dec;46(12):2353-7. doi: 10.1016/j.jpedsurg.2011.09.025.
7. Covington MD, etal., Am J Physiol Renal Physiol. 2006 Jan;290(1):F43-51. Epub 2005 Aug 2.
8. Dahi S, etal., J Vasc Surg. 2005 Sep;42(3):539-45.
9. Filippov S, etal., J Exp Med. 2005 Sep 5;202(5):663-71.
10. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
11. GOA data from the GO Consortium
12. Hayashi K, etal., J Am Soc Nephrol. 1998 Dec;9(12):2262-71.
13. Hayashi K, etal., J Pathol. 2000 Jul;191(3):299-305.
14. He JZ, etal., Am J Physiol Heart Circ Physiol. 2006 Sep 15;.
15. Hosomi N, etal., Neuroscience. 2005;134(1):225-31.
16. Ikonomidis JS, etal., Circulation. 2006 Jul 4;114(1 Suppl):I365-70.
17. Irwin LN and Byers DM, Brain Res. 2012 Dec 13;1489:1-7. doi: 10.1016/j.brainres.2012.10.034. Epub 2012 Oct 26.
18. Jo M, etal., Biol Reprod. 2004 Apr;70(4):1024-32. Epub 2003 Dec 10.
19. John M, etal., Exp Eye Res. 2004 Dec;79(6):839-46.
20. Kassiri Z, etal., Circ Res. 2005 Aug 19;97(4):380-90. Epub 2005 Jul 21.
21. Kim MH, etal., In Vivo. 2000 Sep-Oct;14(5):557-64.
22. Kitagawa Y, etal., J Urol. 1998 Oct;160(4):1540-5.
23. Liao EY, etal., J Endocrinol Invest. 2004 Jan;27(1):1-5.
24. Manase K, etal., Reprod Biol Endocrinol. 2006 Jun 2;4:32.
25. Manduca P, etal., Bone. 2009 Feb;44(2):251-65. Epub 2008 Nov 5.
26. Mazaud S, etal., Dev Biol. 2005 Jan 15;277(2):403-16.
27. MGD data from the GO Consortium
28. Mondy JS, etal., Ethn Dis. 2002 Fall;12(4):S3-18-22.
29. NCBI rat LocusLink and RefSeq merged data July 26, 2002
30. Nezi L, etal., Biol Chem 2002 Jan;383(1):167-76.
31. Norgauer J, etal., Br J Dermatol. 2002 Dec;147(6):1180-6.
32. Okada A, etal., Proc Natl Acad Sci U S A 1995 Mar 28;92(7):2730-4.
33. Orlandi A, etal., Am J Pathol. 2005 Jun;166(6):1619-28.
34. Peterson JT, etal., Cardiovasc Res. 2000 May;46(2):307-15.
35. Pipeline to import KEGG annotations from KEGG into RGD
36. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
37. RGD automated data pipeline
38. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
39. RGD automated import pipeline for gene-chemical interactions
40. Schmidt R, etal., Circulation. 2006 Feb 14;113(6):834-41. Epub 2006 Feb 6.
41. Shofuda T, etal., Arterioscler Thromb Vasc Biol. 2004 May;24(5):839-44. Epub 2004 Mar 25.
42. Sinha I, etal., Surgery. 2004 Aug;136(2):176-82.
43. Slongo ML, etal., Biol Chem 2002 Jan;383(1):235-9.
44. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
45. Takenaga K and Kozlova EN, Glia. 2006 Feb;53(3):313-21.
46. Ueno H, etal., Cancer Res. 1997 May 15;57(10):2055-60.
47. Wang H, etal., Biochem Biophys Res Commun. 2004 Mar 5;315(2):363-8.
48. Wang TL, etal., J Mol Cell Cardiol. 2004 Sep;37(3):785-94.
49. Wu IC, etal., Neoplasia. 2011 Apr;13(4):386-92. doi: 10.1593/neo.101722.
Additional References at PubMed
PMID:12747454   PMID:12970340   PMID:14729674   PMID:15351710   PMID:15358140   PMID:15509661   PMID:15572153   PMID:15863497   PMID:16541018   PMID:17644578   PMID:17684756   PMID:18022611  
PMID:18286538   PMID:18436234   PMID:18562481   PMID:18668563   PMID:20666777   PMID:20683769   PMID:20857180   PMID:20945382   PMID:21385940   PMID:21414971   PMID:21423176   PMID:21572390  
PMID:21826658   PMID:21909755   PMID:22065321   PMID:22342460   PMID:22974613   PMID:23154389   PMID:23404084   PMID:23683405   PMID:24379181   PMID:24784232   PMID:24859005   PMID:24867951  
PMID:24970228   PMID:24990232   PMID:25028660   PMID:25031710   PMID:25759388   PMID:26234751   PMID:26598508   PMID:26620678   PMID:27640084   PMID:27712978   PMID:29853773   PMID:30035384  
PMID:30659604   PMID:33287916  


Genomics

Comparative Map Data
Mmp14
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21527,887,795 - 27,897,020 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1527,887,727 - 27,899,864 (+)Ensembl
Rnor_6.01533,074,441 - 33,083,666 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1533,074,441 - 33,083,655 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01536,960,282 - 36,969,507 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41532,493,852 - 32,503,077 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11532,509,551 - 32,518,777 (+)NCBI
Celera1527,470,861 - 27,480,086 (+)NCBICelera
Cytogenetic Map15p13NCBI
MMP14
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1422,836,560 - 22,849,041 (+)EnsemblGRCh38hg38GRCh38
GRCh381422,836,585 - 22,847,758 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371423,305,794 - 23,316,967 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361422,375,633 - 22,386,643 (+)NCBINCBI36hg18NCBI36
Build 341422,375,632 - 22,386,642NCBI
Celera143,168,679 - 3,179,688 (+)NCBI
Cytogenetic Map14q11.2NCBI
HuRef143,422,922 - 3,433,986 (+)NCBIHuRef
CHM1_11423,304,418 - 23,315,462 (+)NCBICHM1_1
Mmp14
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391454,669,055 - 54,679,913 (+)NCBIGRCm39mm39
GRCm39 Ensembl1454,669,069 - 54,682,821 (+)Ensembl
GRCm381454,431,598 - 54,442,456 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1454,431,612 - 54,445,364 (+)EnsemblGRCm38mm10GRCm38
MGSCv371455,050,441 - 55,060,095 (+)NCBIGRCm37mm9NCBIm37
MGSCv361453,385,824 - 53,395,458 (+)NCBImm8
Celera1452,223,646 - 52,233,174 (+)NCBICelera
Cytogenetic Map14C2NCBI
cM Map1427.79NCBI
Mmp14
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540937,440,541 - 37,448,437 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540937,438,924 - 37,448,704 (-)NCBIChiLan1.0ChiLan1.0
MMP14
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11421,753,305 - 21,764,061 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1421,753,305 - 21,764,058 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0143,654,125 - 3,665,158 (+)NCBIMhudiblu_PPA_v0panPan3
MMP14
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.183,183,419 - 3,193,079 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl83,183,606 - 3,194,122 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha83,132,308 - 3,142,668 (+)NCBI
ROS_Cfam_1.083,291,562 - 3,301,919 (+)NCBI
UMICH_Zoey_3.182,983,033 - 2,993,386 (+)NCBI
UNSW_CanFamBas_1.083,044,810 - 3,055,166 (+)NCBI
UU_Cfam_GSD_1.083,306,779 - 3,317,137 (+)NCBI
Mmp14
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864034,931,359 - 34,941,231 (+)NCBI
SpeTri2.0NW_0049367221,447,189 - 1,457,632 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MMP14
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl776,174,500 - 76,185,923 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1776,174,502 - 76,185,931 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2781,413,927 - 81,424,899 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MMP14
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12923,201,425 - 23,212,408 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2923,201,112 - 23,212,679 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605923,209,848 - 23,220,925 (-)NCBIVero_WHO_p1.0
Mmp14
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248209,667,371 - 9,677,488 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH91125  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21527,896,772 - 27,896,928 (+)MAPPERmRatBN7.2
Rnor_6.01533,083,419 - 33,083,574NCBIRnor6.0
Rnor_5.01536,969,260 - 36,969,415UniSTSRnor5.0
RGSC_v3.41532,502,830 - 32,502,985UniSTSRGSC3.4
Celera1527,479,839 - 27,479,994UniSTS
Cytogenetic Map15p13UniSTS
BI286324  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21527,896,812 - 27,896,979 (+)MAPPERmRatBN7.2
Rnor_6.01533,083,459 - 33,083,625NCBIRnor6.0
Rnor_5.01536,969,300 - 36,969,466UniSTSRnor5.0
RGSC_v3.41532,502,870 - 32,503,036UniSTSRGSC3.4
Celera1527,479,879 - 27,480,045UniSTS
Cytogenetic Map15p13UniSTS
AI325305  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21527,896,211 - 27,896,319 (+)MAPPERmRatBN7.2
Rnor_6.01533,082,858 - 33,082,965NCBIRnor6.0
Rnor_5.01536,968,699 - 36,968,806UniSTSRnor5.0
RGSC_v3.41532,502,269 - 32,502,376UniSTSRGSC3.4
Celera1527,479,278 - 27,479,385UniSTS
Cytogenetic Map15p13UniSTS
Mmp14  
Rat AssemblyChrPosition (strand)SourceJBrowse
RGSC_v3.410103,730,181 - 103,730,256UniSTSRGSC3.4
RGSC_v3.41532,500,938 - 32,502,522UniSTSRGSC3.4
Celera1527,477,947 - 27,479,531UniSTS
Celera1097,735,660 - 97,735,735UniSTS
MARC_9867-9868:996688667:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21527,895,200 - 27,896,218 (+)MAPPERmRatBN7.2
Rnor_6.01533,081,847 - 33,082,864NCBIRnor6.0
Rnor_5.01536,967,688 - 36,968,705UniSTSRnor5.0
RGSC_v3.41532,501,258 - 32,502,275UniSTSRGSC3.4
Celera1527,478,267 - 27,479,284UniSTS
Cytogenetic Map15p13UniSTS
Mmp14  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01536,967,368 - 36,968,952UniSTSRnor5.0
RGSC_v3.41532,500,938 - 32,502,522UniSTSRGSC3.4
Celera1527,477,947 - 27,479,531UniSTS
Cytogenetic Map15p13UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15129912054Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151448116528469888Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:399
Count of miRNA genes:173
Interacting mature miRNAs:198
Transcripts:ENSRNOT00000042938, ENSRNOT00000075610
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 40 57 41 19 41 6 8 64 35 40 11 6
Low 3 2 3 10 1 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000075610   ⟹   ENSRNOP00000065434
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1527,887,764 - 27,897,009 (+)Ensembl
Rnor_6.0 Ensembl1533,074,441 - 33,083,655 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000096630   ⟹   ENSRNOP00000081148
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1527,890,846 - 27,897,009 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118043   ⟹   ENSRNOP00000086712
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1527,887,727 - 27,899,864 (+)Ensembl
RefSeq Acc Id: NM_031056   ⟹   NP_112318
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21527,887,795 - 27,897,020 (+)NCBI
Rnor_6.01533,074,441 - 33,083,666 (+)NCBI
Rnor_5.01536,960,282 - 36,969,507 (+)NCBI
RGSC_v3.41532,493,852 - 32,503,077 (+)RGD
Celera1527,470,861 - 27,480,086 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_112318   ⟸   NM_031056
- Peptide Label: precursor
- UniProtKB: Q10739 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000065434   ⟸   ENSRNOT00000075610
RefSeq Acc Id: ENSRNOP00000086712   ⟸   ENSRNOT00000118043
RefSeq Acc Id: ENSRNOP00000081148   ⟸   ENSRNOT00000096630

Transcriptome

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

Promoters
RGD ID:13699650
Promoter ID:EPDNEW_R10173
Type:initiation region
Name:Mmp14_1
Description:matrix metallopeptidase 14
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_6.01533,074,386 - 33,074,446EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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)
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-Lx/CubMcwi (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
BN/NHsdMcwi (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
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)
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
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)
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
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)
DA/OlaHsd (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (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/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
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)
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
F344/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
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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
FXLE16/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
FXLE18/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
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/FarMcwi (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
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)
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
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)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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
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)
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
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)
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
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)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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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)
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:620198 AgrOrtholog
Ensembl Genes ENSRNOG00000010947 Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000065434 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000075610 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.101.10 UniProtKB/Swiss-Prot
  2.110.10.10 UniProtKB/Swiss-Prot
  3.40.390.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7103279 IMAGE-MGC_LOAD
InterPro Hemopexin-like_dom UniProtKB/Swiss-Prot
  Hemopexin-like_dom_sf UniProtKB/Swiss-Prot
  Hemopexin-like_repeat UniProtKB/Swiss-Prot
  Hemopexin_CS UniProtKB/Swiss-Prot
  M10A_MMP UniProtKB/Swiss-Prot
  MetalloPept_cat_dom_sf UniProtKB/Swiss-Prot
  Pept_M10_metallopeptidase UniProtKB/Swiss-Prot
  Pept_M10A UniProtKB/Swiss-Prot
  Pept_M10A_metallopeptidase_C UniProtKB/Swiss-Prot
  Pept_M10A_Zn_BS UniProtKB/Swiss-Prot
  Peptidase_Metallo UniProtKB/Swiss-Prot
  Peptidoglycan-bd-like UniProtKB/Swiss-Prot
  PGBD-like_sf UniProtKB/Swiss-Prot
  PGBDSf UniProtKB/Swiss-Prot
KEGG Report rno:81707 UniProtKB/Swiss-Prot
MGC_CLONE MGC:91652 IMAGE-MGC_LOAD
NCBI Gene 81707 ENTREZGENE
Pfam DUF3377 UniProtKB/Swiss-Prot
  Hemopexin UniProtKB/Swiss-Prot
  Peptidase_M10 UniProtKB/Swiss-Prot
  PG_binding_1 UniProtKB/Swiss-Prot
PhenoGen Mmp14 PhenoGen
PIRSF Peptidase_M10A_matrix UniProtKB/Swiss-Prot
PRINTS MATRIXIN UniProtKB/Swiss-Prot
PROSITE CYSTEINE_SWITCH UniProtKB/Swiss-Prot
  HEMOPEXIN UniProtKB/Swiss-Prot
  HEMOPEXIN_2 UniProtKB/Swiss-Prot
  ZINC_PROTEASE UniProtKB/Swiss-Prot
SMART SM00120 UniProtKB/Swiss-Prot
  ZnMc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47090 UniProtKB/Swiss-Prot
  SSF50923 UniProtKB/Swiss-Prot
UniProt MMP14_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q6IN06 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-23 Mmp14  matrix metallopeptidase 14  Mmp14  matrix metallopeptidase 14 (membrane-inserted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Mmp14  matrix metallopeptidase 14 (membrane-inserted)    matrix metalloproteinase 14 (membrane-inserted)  Name updated 1299863 APPROVED
2004-09-10 Mmp14  matrix metalloproteinase 14 (membrane-inserted)    matrix metalloproteinase 14, membrane-inserted  Name updated 1299863 APPROVED
2002-08-07 Mmp14  matrix metalloproteinase 14, membrane-inserted      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_process may have a critical role in tumor progression 729349