Mif (macrophage migration inhibitory factor) - Rat Genome Database

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Gene: Mif (macrophage migration inhibitory factor) Rattus norvegicus
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Symbol: Mif
Name: macrophage migration inhibitory factor
RGD ID: 621163
Description: Predicted to enable several functions, including identical protein binding activity; intramolecular oxidoreductase activity; and receptor ligand activity. Involved in several processes, including positive regulation of transport; response to steroid hormone; and response to vitamin. Located in cytoplasm; extracellular space; and nucleus. Used to study several diseases, including acute necrotizing pancreatitis; cardiomyopathy (multiple); lung disease (multiple); retinitis; and toxic shock syndrome. Biomarker of borna disease; cystitis; kidney disease; myocardial infarction; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in allergic disease; asthma; cystic fibrosis; lung disease (multiple); and obesity. Orthologous to human MIF (macrophage migration inhibitory factor); PARTICIPATES IN alkaptonuria pathway; disulfiram pharmacodynamics pathway; dopamine beta-hydroxylase deficiency pathway; INTERACTS WITH 1,2,4-trimethylbenzene; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: glutathione-binding 13 kDa protein; L-dopachrome isomerase; L-dopachrome tautomerase; LOC103694877; macrophage migration inhibitory factor (glycosylation-inhibiting factor); MGC72801; phenylpyruvate tautomerase
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Acyp2-ps1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22012,790,919 - 12,791,784 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl2012,790,902 - 12,799,504 (+)Ensembl
Rnor_6.02013,715,219 - 13,732,980 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2013,732,198 - 13,732,859 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02015,885,248 - 15,886,113 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42013,191,986 - 13,192,851 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12013,192,212 - 13,193,078 (+)NCBI
Celera2014,283,080 - 14,283,945 (+)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute necrotizing pancreatitis  (IDA)
Agammaglobulinemia 2, Autosomal Recessive  (ISO)
Alcoholic Liver Diseases  (IEP)
allergic disease  (ISO)
Animal Mammary Neoplasms  (ISO)
anti-basement membrane glomerulonephritis  (IDA)
anxiety disorder  (ISO)
arteriosclerosis  (ISO)
asthma  (IDA,ISO)
autism spectrum disorder  (ISO)
autistic disorder  (ISO)
borna disease  (IEP)
Brain Injuries  (IEP)
Breast Neoplasms  (ISO)
Bronchial Hyperreactivity  (ISO)
Bronchopulmonary Dysplasia  (ISO)
Burns  (IEP)
carcinoma  (ISO)
cardiomyopathy  (IDA)
Chylothorax  (ISO)
colitis  (IDA,ISO)
Coronary Disease  (IEP)
cystic fibrosis  (ISO)
cystitis  (IEP)
Endotoxemia  (IEP)
epilepsy  (IDA,ISO)
Experimental Arthritis  (IDA)
Experimental Colitis  (ISO)
Experimental Diabetes Mellitus  (ISO)
Experimental Liver Cirrhosis  (IEP)
Granuloma  (IEP)
Hamartoma  (ISO)
Hypercholesterolemia  (IEP)
hypertension  (IDA)
Inflammation  (IDA,ISO)
Insulin Resistance  (ISO)
juvenile rheumatoid arthritis  (ISS)
Keloid  (ISO)
kidney disease  (IEP)
lung disease  (IMP,ISO)
lung non-small cell carcinoma  (ISO)
malignant mesothelioma  (ISO)
Mammary Neoplasms, Experimental  (ISO)
Memory Disorders  (ISO)
mental depression  (ISO)
myocardial infarction  (IEP,ISO)
myocarditis  (IDA)
newborn respiratory distress syndrome  (ISO)
obesity  (ISO)
pneumonia  (ISO)
Prostatic Neoplasms  (ISO)
pulmonary edema  (ISO)
pulmonary hypertension  (ISO)
pulmonary tuberculosis  (ISO)
Radiation Pneumonitis  (ISO)
Reperfusion Injury  (ISO)
retinitis  (IDA)
rheumatoid arthritis  (ISO)
rhinitis  (ISO)
schizophrenia  (ISO)
Sepsis  (ISO)
Spinal Cord Injuries  (IEP)
Stevens-Johnson syndrome  (ISO)
Stroke  (IEP,ISO)
Systemic Juvenile Rheumatoid Arthritis  (ISO)
toxic shock syndrome  (IDA,IMP)
type 2 diabetes mellitus  (IEP)
viral pneumonia  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-artemisinic acid  (ISO)
(+)-catechin  (ISO)
(Z)-3-butylidenephthalide  (ISO)
1,10-phenanthroline  (ISO)
1,2,4-trimethylbenzene  (EXP)
1-fluoro-2,4-dinitrobenzene  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-trinitrotoluene  (EXP)
2-amino-14,16-dimethyloctadecan-3-ol  (ISO)
3-phenylprop-2-enal  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-chloro-7-iodoquinolin-8-ol  (ISO)
7,12-dimethyltetraphene  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
amphibole asbestos  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antirheumatic drug  (ISO)
apocynin  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
asperentin  (ISO)
atrazine  (EXP)
azoxystrobin  (EXP)
benzalkonium chloride  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (EXP)
bromobenzene  (EXP)
buspirone  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
capsaicin  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
cerium trichloride  (ISO)
chlorohydrocarbon  (EXP)
chloropicrin  (ISO)
chlorothalonil  (ISO)
chlorpyrifos  (EXP)
chromium(6+)  (ISO)
clofibric acid  (EXP)
cobalt atom  (ISO)
cobalt dichloride  (ISO)
cobalt(2+) sulfate  (ISO)
copper(II) sulfate  (ISO)
cumene  (ISO)
cyclophosphamide  (EXP)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibutyl phthalate  (EXP)
dinitrogen  (ISO)
dioxygen  (ISO)
doxorubicin  (EXP,ISO)
enzyme inhibitor  (ISO)
ethanol  (EXP)
finasteride  (EXP)
flavonoids  (ISO)
fluoxetine  (EXP)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
gentamycin  (EXP)
glyphosate  (EXP)
heparin  (ISO)
hydrogen chloride  (EXP)
hydrogen peroxide  (ISO)
hydrogen sulfide  (ISO)
imidacloprid  (EXP)
iron atom  (EXP)
iron(0)  (EXP)
ivermectin  (ISO)
kojic acid  (EXP)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
metam  (ISO)
methamphetamine  (EXP)
methylmercury chloride  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
mycophenolic acid  (ISO)
mycotoxin  (ISO)
N-nitrosodiethylamine  (EXP)
naphthalenes  (EXP)
naproxen  (EXP)
nefazodone  (EXP)
nickel atom  (EXP)
nickel sulfate  (ISO)
nitrofen  (EXP)
ochratoxin A  (EXP)
oleanolic acid  (ISO)
paracetamol  (EXP)
paraquat  (ISO)
phenobarbital  (EXP)
PhIP  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
pyrogallol  (ISO)
quercetin  (ISO)
resveratrol  (EXP)
rottlerin  (ISO)
sarin  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sterigmatocystin  (ISO)
sumatriptan  (EXP)
tanespimycin  (ISO)
temozolomide  (ISO)
tetrachloroethene  (ISO)
thiabendazole  (EXP)
titanium dioxide  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
tungsten  (EXP,ISO)
Tungsten carbide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
zinc dichloride  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
brain development  (IEP)
brain renin-angiotensin system  (IMP)
carboxylic acid metabolic process  (ISO)
cell aging  (ISO)
cell surface receptor signaling pathway  (ISO)
cellular response to hydrogen peroxide  (IEP)
cellular response to hypoxia  (IEP)
DNA damage response, signal transduction by p53 class mediator  (ISO)
drinking behavior  (IMP)
hair follicle development  (IEP)
inflammatory response  (IEA)
innate immune response  (IEA)
negative regulation of apoptotic process  (ISO)
negative regulation of cell aging  (ISO)
negative regulation of cell migration  (ISO)
negative regulation of cellular protein metabolic process  (ISO)
negative regulation of DNA damage response, signal transduction by p53 class mediator  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator  (ISO)
negative regulation of macrophage chemotaxis  (ISO)
negative regulation of mature B cell apoptotic process  (ISO)
negative regulation of myeloid cell apoptotic process  (ISO)
positive chemotaxis  (IEA)
positive regulation of acute inflammatory response  (IMP)
positive regulation of arachidonic acid secretion  (ISO)
positive regulation of axon regeneration  (IMP)
positive regulation of B cell proliferation  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of chemokine (C-X-C motif) ligand 2 production  (ISO)
positive regulation of cytokine production  (ISO)
positive regulation of ERK1 and ERK2 cascade  (ISO)
positive regulation of fibroblast proliferation  (ISO)
positive regulation of glucose import  (IMP)
positive regulation of glycolytic process  (IMP)
positive regulation of immune response  (IMP)
positive regulation of lipopolysaccharide-mediated signaling pathway  (ISO)
positive regulation of MAP kinase activity  (ISO)
positive regulation of myeloid leukocyte cytokine production involved in immune response  (ISO)
positive regulation of peptidyl-serine phosphorylation  (ISO)
positive regulation of peptidyl-tyrosine phosphorylation  (ISO)
positive regulation of phosphorylation  (ISO)
positive regulation of potassium ion transport  (IMP)
positive regulation of prostaglandin secretion involved in immune response  (ISO)
positive regulation of protein kinase A signaling  (ISO)
positive regulation of protein phosphorylation  (ISO)
positive regulation of smooth muscle cell migration  (IMP)
positive regulation of tumor necrosis factor production  (ISO)
prostaglandin biosynthetic process  (ISO)
protein homotrimerization  (ISO)
regulation of cell population proliferation  (ISO)
response to estradiol  (IEP)
response to glucocorticoid  (IEP)
response to heat  (IEP)
response to hormone  (IEP)
response to inorganic substance  (IEP)
response to insulin  (IEP)
response to lipopolysaccharide  (IEP)
response to mechanical stimulus  (IEP)
response to menaquinone  (IEP)
response to progesterone  (IEP)
response to vitamin E  (IEP)
response to xenobiotic stimulus  (IEP)
skin development  (IEP)
spermatogenesis  (IMP)
wound healing  (IEP)

Cellular Component

References

References - curated
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60. Pipeline to import KEGG annotations from KEGG into RGD
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Additional References at PubMed
PMID:1436109   PMID:7951062   PMID:8605628   PMID:10364264   PMID:10562313   PMID:11756671   PMID:12297465   PMID:12477932   PMID:12631343   PMID:12782713   PMID:12878730   PMID:12908877  
PMID:15012733   PMID:15489334   PMID:15525779   PMID:15576460   PMID:15809768   PMID:15899155   PMID:16115025   PMID:16285950   PMID:16728343   PMID:16728344   PMID:16981995   PMID:17045821  
PMID:17526494   PMID:17634366   PMID:18056708   PMID:18235500   PMID:19056867   PMID:19155217   PMID:19190083   PMID:19394321   PMID:19602265   PMID:20458337   PMID:20534506   PMID:20883785  
PMID:21209875   PMID:21500553   PMID:21802455   PMID:21817065   PMID:21887805   PMID:22005047   PMID:22136975   PMID:22952837   PMID:23376485   PMID:23533145   PMID:24006456   PMID:24569872  
PMID:24667295   PMID:25416956   PMID:25647395   PMID:25701358   PMID:25705692   PMID:26318747   PMID:26847932   PMID:26929185   PMID:27068509   PMID:27926507   PMID:28158469   PMID:28161708  
PMID:28165114   PMID:28851074   PMID:29207187   PMID:29335619   PMID:29690804   PMID:29760351   PMID:30341520   PMID:30465176   PMID:30601408   PMID:31197516   PMID:31515488   PMID:31904090  
PMID:31960418   PMID:32357304   PMID:32964038  


Genomics

Comparative Map Data
Mif
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22012,790,919 - 12,791,784 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl2012,790,902 - 12,799,504 (+)Ensembl
Rnor_6.02013,715,219 - 13,732,980 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2013,732,198 - 13,732,859 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02015,885,248 - 15,886,113 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42013,191,986 - 13,192,851 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12013,192,212 - 13,193,078 (+)NCBI
Celera2014,283,080 - 14,283,945 (+)NCBICelera
Cytogenetic Map20p12NCBI
MIF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2223,894,383 - 23,895,227 (+)EnsemblGRCh38hg38GRCh38
GRCh382223,894,383 - 23,895,223 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372224,236,570 - 24,237,410 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362222,566,565 - 22,567,409 (+)NCBINCBI36hg18NCBI36
Build 342222,561,118 - 22,561,963NCBI
Celera228,074,325 - 8,075,169 (+)NCBI
Cytogenetic Map22q11.23NCBI
HuRef227,221,904 - 7,222,748 (+)NCBIHuRef
CHM1_12224,248,957 - 24,249,801 (+)NCBICHM1_1
Mif
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391075,695,187 - 75,696,111 (-)NCBIGRCm39mm39
GRCm39 Ensembl1075,695,187 - 75,696,074 (-)Ensembl
GRCm381075,859,353 - 75,860,277 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1075,859,353 - 75,860,240 (-)EnsemblGRCm38mm10GRCm38
MGSCv371075,322,098 - 75,322,995 (-)NCBIGRCm37mm9NCBIm37
MGSCv361075,303,069 - 75,303,966 (-)NCBImm8
Celera1076,904,043 - 76,904,940 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1038.59NCBI
Mif
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554558,367,566 - 8,368,460 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554558,367,566 - 8,368,460 (-)NCBIChiLan1.0ChiLan1.0
MIF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12222,729,245 - 22,732,009 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2222,730,807 - 22,732,009 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0224,646,986 - 4,647,831 (+)NCBIMhudiblu_PPA_v0panPan3
MIF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha2627,715,404 - 27,716,260 (-)NCBI
ROS_Cfam_1.02630,047,047 - 30,047,902 (-)NCBI
UMICH_Zoey_3.12628,128,386 - 28,129,245 (-)NCBI
UNSW_CanFamBas_1.02627,746,427 - 27,747,273 (-)NCBI
UU_Cfam_GSD_1.02628,734,407 - 28,735,264 (-)NCBI
Mif
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118141,546,059 - 141,547,004 (+)NCBI
SpeTri2.0NW_0049366191,207,058 - 1,208,010 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MIF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1449,840,305 - 49,862,317 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11449,840,303 - 49,841,063 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21453,282,553 - 53,283,313 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MIF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1197,000,837 - 7,001,700 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl197,000,793 - 7,001,757 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666100368,099 - 370,934 (-)NCBIVero_WHO_p1.0
Mif
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474710,307,826 - 10,308,649 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH94636  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map20p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20669170617489458Rat
1581577Pur15Proteinuria QTL 154.380.0002total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20804241017617956Rat
4889870Pur30Proteinuria QTL 30190.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
631265Iresp1Immunoglobin response QTL18.3blood anti-double stranded DNA antibody amount (VT:0004762)serum anti-DNA antibody level (CMO:0001533)20903971913461775Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:47
Count of miRNA genes:45
Interacting mature miRNAs:47
Transcripts:ENSRNOT00000008608
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_031051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601782 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC091362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC061545 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210474 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213295 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218686 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223656 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229084 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  S73424 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U20999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U62326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000008608   ⟹   ENSRNOP00000008608
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2012,790,902 - 12,791,784 (+)Ensembl
Rnor_6.0 Ensembl2013,732,198 - 13,732,859 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077564   ⟹   ENSRNOP00000074316
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2012,790,902 - 12,799,504 (+)Ensembl
RefSeq Acc Id: NM_031051   ⟹   NP_112313
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22012,790,919 - 12,791,784 (+)NCBI
Rnor_6.02013,732,114 - 13,732,979 (+)NCBI
Rnor_5.02015,885,248 - 15,886,113 (+)NCBI
RGSC_v3.42013,191,986 - 13,192,851 (+)RGD
Celera2014,283,080 - 14,283,945 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_112313   ⟸   NM_031051
- UniProtKB: P30904 (UniProtKB/Swiss-Prot),   A0A0F7RQL3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000008608   ⟸   ENSRNOT00000008608
RefSeq Acc Id: ENSRNOP00000074316   ⟸   ENSRNOT00000077564

Transcriptome

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

Promoters
RGD ID:13701531
Promoter ID:EPDNEW_R12055
Type:initiation region
Name:LOC103694877_1
Description:macrophage migration inhibitory factor
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02013,732,146 - 13,732,206EPDNEW

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)
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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
LEXF1A/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
LEXF1C/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
LEXF2B/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
LEXF3/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
LEXF4/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
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/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
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (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
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
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)
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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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 15885425 15885426 G A snv RCS/Kyo (KyushuU), ZFDM (KyushuU), ZF (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), DOB/Oda (KyushuU), LE/Stm (KyushuU), F344/NSlc (KyushuU)
20 15885666 15885667 T G snv DOB/Oda (KyushuU), COP/CrCrl (MCW & UW)
20 15885720 15885721 G A snv FHH/EurMcwi (MCW), FHL/EurMcwi (MCW)
20 15885774 15885775 T G snv KFRS3B/Kyo (KyushuU)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 13732224 13732225 T A snv FHL/EurMcwi (MCW), COP/CrCrl (MCW & UW), ACI/EurMcwi (MCW), CDS, CDR, SS/JrHsdMcwi (MCW), SBN/Ygl (MCW), GH/OmrMcwi (MCW), WN/N (MCW)
20 13732291 13732292 G A snv SS/JrHsdMcwi (MCW), SBH/Ygl (MCW), FHL/EurMcwi (MCW), CDR, CDS
20 13732532 13732533 T G snv COP/CrCrl (MCW & UW), ACI/EurMcwi (MCW)
20 13732586 13732587 G A snv SR/JrHsd (MCW), FHL/EurMcwi (MCW)
20 13732640 13732641 T G snv FHL/EurMcwi (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 13192096 13192097 T A snv HCR/2Mco (UMich), LCR/2Mco (UMich), HCR/1Mco (UMich), WN/N (KNAW)
20 13192404 13192405 T G snv COP/CrCrl (MCW & UW)
20 13192512 13192513 T G snv FHH/EurMcwi (MCW), FHL/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621163 AgrOrtholog
Ensembl Genes ENSRNOG00000006589 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00000056076 UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000008608 UniProtKB/Swiss-Prot
  ENSRNOP00000074316 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000008608 UniProtKB/Swiss-Prot
  ENSRNOT00000077564 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.429.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6920605 IMAGE-MGC_LOAD
InterPro Macrophage_inhib_fac UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Macrophage_inhib_fac_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tautomerase/MIF_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:81683 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72801 IMAGE-MGC_LOAD
NCBI Gene 81683 ENTREZGENE
PANTHER PTHR11954 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam MIF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Mif PhenoGen
PROSITE MIF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF55331 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0F7RQL3 ENTREZGENE, UniProtKB/TrEMBL
  MIF_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Mif  macrophage migration inhibitory factor  LOC103694877  macrophage migration inhibitory factor  Data Merged 737654 PROVISIONAL
2017-08-16 Mif  macrophage migration inhibitory factor  Mif  macrophage migration inhibitory factor (glycosylation-inhibiting factor)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-08-25 LOC103694877  macrophage migration inhibitory factor      Symbol and Name status set to provisional 70820 PROVISIONAL
2013-02-27 Mif  macrophage migration inhibitory factor (glycosylation-inhibiting factor)  Mif  macrophage migration inhibitory factor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Mif  macrophage migration inhibitory factor      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Mif  macrophage migration inhibitory factor      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease serum levels increase dramatically in in acute pancreatitis 727512
gene_regulation protein expression is increased by dexamethasone treatment of the adrenal gland after ablation of the hypothalamic-pituitary-adrenal axis 729251