Tfrc (transferrin receptor) - Rat Genome Database

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Gene: Tfrc (transferrin receptor) Rattus norvegicus
Analyze
Symbol: Tfrc
Name: transferrin receptor
RGD ID: 70488
Description: Enables Hsp70 protein binding activity; chaperone binding activity; and transferrin receptor activity. Involved in several processes, including response to copper ion; response to manganese ion; and response to retinoic acid. Located in several cellular components, including cell surface; extracellular exosome; and recycling endosome membrane. Biomarker of duodenal ulcer; hepatocellular carcinoma; muscular atrophy; non-alcoholic fatty liver disease; and nutrition disease. Human ortholog(s) of this gene implicated in breast carcinoma; immunodeficiency 46; multiple myeloma; and ovarian cancer. Orthologous to human TFRC (transferrin receptor); PARTICIPATES IN forkhead class A signaling pathway; hypoxia inducible factor pathway; iron uptake pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: tfR; tfR1; TR; transferrin receptor protein 1; Trfr
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
mRatBN7.21168,163,413 - 68,185,257 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1168,163,413 - 68,185,257 (-)Ensembl
Rnor_6.01171,397,423 - 71,419,263 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1171,397,383 - 71,419,223 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01174,479,841 - 74,502,561 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41169,976,258 - 69,998,098 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11170,034,788 - 70,049,347 (-)NCBI
Celera1167,596,761 - 67,618,555 (-)NCBICelera
Cytogenetic Map11q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(R)-mevalonic acid  (ISO)
(S)-nicotine  (ISO)
1,10-phenanthroline  (ISO)
1,2-dimethylhydrazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
1-naphthyl isothiocyanate  (EXP)
1-octadec-9-enoylglycero-3-phosphate  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,6-di-tert-butyl-4-methylphenol  (ISO)
2,6-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
2-butoxyethanol  (ISO)
2-methoxyethanol  (EXP)
2-methylcholine  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3,7-dihydropurine-6-thione  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
5-fluorouracil  (ISO)
7,12-dimethyltetraphene  (ISO)
aconitine  (EXP)
acrolein  (ISO)
acrylamide  (EXP,ISO)
Actein  (EXP)
afimoxifene  (ISO)
aflatoxin B1  (EXP,ISO)
agmatine  (ISO)
alachlor  (EXP)
alcohol  (ISO)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (EXP,ISO)
alpha-pinene  (ISO)
aluminium atom  (EXP)
aluminium hydroxide  (ISO)
aluminium(0)  (EXP)
amitrole  (ISO)
ammonium chloride  (EXP)
anthracene-1,8,9-triol  (ISO)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
astragaloside IV  (ISO)
atorvastatin calcium  (ISO)
atrazine  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[k]fluoranthene  (ISO)
bisphenol A  (EXP,ISO)
bucladesine  (ISO)
busulfan  (ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
butyric acid  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
catechol  (ISO)
cefaloridine  (EXP)
chloropicrin  (ISO)
cholic acid  (ISO)
choline  (ISO)
chromium(6+)  (EXP,ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clofibrate  (EXP)
cobalt atom  (ISO)
cobalt dichloride  (ISO)
cobalt(2+) sulfate  (ISO)
cocaine  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
coumarin  (EXP)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
curcumin  (EXP,ISO)
cyclosporin A  (ISO)
cyproterone acetate  (ISO)
D-penicillamine  (EXP)
deferiprone  (ISO)
desferrioxamine B  (EXP,ISO)
dexamethasone  (EXP,ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dichlorine  (EXP)
dichloroacetic acid  (ISO)
diclofenac  (ISO)
diiodine  (ISO)
dioxygen  (ISO)
diquat  (EXP)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
erastin  (EXP,ISO)
ethanol  (EXP,ISO)
ferric ammonium citrate  (ISO)
ferric oxide  (ISO)
ferric pyrophosphate  (ISO)
fipronil  (EXP)
Fluorocitric acid  (EXP)
flutamide  (EXP)
fluvastatin  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
furan  (EXP,ISO)
gallium atom  (EXP,ISO)
genistein  (EXP,ISO)
ginkgetin  (ISO)
ginkgolide B  (ISO)
glafenine  (EXP)
glycerol  (ISO)
hemin  (EXP,ISO)
heparin  (EXP,ISO)
heroin  (ISO)
hexachlorobenzene  (EXP)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
hypochlorous acid  (ISO)
indometacin  (ISO)
ionomycin  (EXP)
irinotecan  (ISO)
iron atom  (EXP,ISO)
iron dextran  (ISO)
iron(0)  (EXP,ISO)
iron(2+) sulfate (anhydrous)  (EXP,ISO)
iron(III) citrate  (ISO)
isoprenaline  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (EXP,ISO)
lithocholic acid  (ISO)
LY294002  (ISO)
malathion  (ISO)
manganese atom  (EXP,ISO)
manganese(0)  (EXP,ISO)
manganese(II) chloride  (EXP)
melatonin  (EXP)
menadione  (ISO)
mercaptopurine  (EXP)
mercury dichloride  (ISO)
metformin  (EXP)
methapyrilene  (EXP,ISO)
Mezerein  (ISO)
mithramycin  (EXP)
monocrotaline  (ISO)
monosodium L-glutamate  (ISO)
motexafin gadolinium  (ISO)
N-[3-(aminomethyl)benzyl]acetamidine  (ISO)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-nitrosodiethylamine  (EXP,ISO)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
nefazodone  (EXP)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
nicotine  (ISO)
nicotinic acid  (EXP)
nimesulide  (EXP)
nitric oxide  (EXP,ISO)
nitrofen  (EXP)
nitroprusside  (ISO)
okadaic acid  (ISO)
oleic acid  (ISO)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
p-toluidine  (EXP)
palytoxin  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP,ISO)
phenol  (ISO)
phenylarsine oxide  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (EXP,ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP,ISO)
progesterone  (EXP,ISO)
propane-1,2-diol  (ISO)
propiconazole  (ISO)
prostaglandin E2  (ISO)
protein kinase inhibitor  (ISO)
purine-6-thiol  (EXP)
quartz  (EXP)
quercetin  (EXP,ISO)
raloxifene  (ISO)
ranitidine  (EXP)
Rebamipide  (EXP)
resveratrol  (ISO)
Ro 41-5253  (EXP)
rofecoxib  (ISO)
rotenone  (EXP)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
S-adenosyl-L-methioninate  (EXP)
S-adenosyl-L-methionine  (EXP)
saccharin  (ISO)
sarin  (ISO)
SB 431542  (ISO)
sepiapterin  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
streptozocin  (EXP)
succimer  (ISO)
sulfadimethoxine  (ISO)
sulforaphane  (EXP)
sunitinib  (ISO)
tacrolimus hydrate  (ISO)
tamoxifen  (ISO)
tebuconazole  (EXP)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
tin(II) chloride (anhydrous)  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
torcetrapib  (ISO)
tributylstannane  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
troglitazone  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
Yessotoxin  (ISO)
zinc acetate  (ISO)
zinc atom  (ISO)
zinc dichloride  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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4. Barisani D, etal., Physiol Genomics. 2004 May 19;17(3):316-25.
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6. Cornock R, etal., Reprod Biol Endocrinol. 2013 May 1;11:32. doi: 10.1186/1477-7827-11-32.
7. Cortes-Barberena E, etal., Clin Exp Immunol. 2008 Mar 28;.
8. Daniels TR, etal., J Immunother. 2011 Jul-Aug;34(6):500-8. doi: 10.1097/CJI.0b013e318222ffc8.
9. Daniels-Wells TR, etal., J Immunother. 2015 Oct;38(8):307-10. doi: 10.1097/CJI.0000000000000092.
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14. Geminard C, etal., J Biol Chem. 2001 Mar 30;276(13):9910-6. Epub 2000 Dec 22.
15. GOA data from the GO Consortium
16. Hofer T, etal., Exp Gerontol. 2008 Feb 29;.
17. Hogemann-Savellano D, etal., Neoplasia. 2003 Nov-Dec;5(6):495-506.
18. Holmstrom P, etal., Liver Int. 2006 Oct;26(8):976-85.
19. Kaur C, etal., Glia. 2007 Feb;55(3):263-73.
20. Khomenko T, etal., Am J Physiol Gastrointest Liver Physiol. 2009 Jun;296(6):G1277-86. doi: 10.1152/ajpgi.90257.2008. Epub 2009 Apr 2.
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24. Lane DJ, etal., Biochim Biophys Acta. 2015 May;1853(5):1130-44. doi: 10.1016/j.bbamcr.2015.01.021. Epub 2015 Feb 4.
25. Lelliott PM, etal., Infect Immun. 2015 Nov;83(11):4322-34. doi: 10.1128/IAI.00926-15. Epub 2015 Aug 24.
26. Li Y, etal., Biol Trace Elem Res. 2012 Dec;150(1-3):242-8. doi: 10.1007/s12011-012-9455-0. Epub 2012 May 26.
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28. Ma L, etal., Biol Trace Elem Res. 2008 Winter;126(1-3):204-13. doi: 10.1007/s12011-008-8197-5. Epub 2008 Aug 16.
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34. MGD data from the GO Consortium
35. NCBI rat LocusLink and RefSeq merged data July 26, 2002
36. OMIM Disease Annotation Pipeline
37. Pipeline to import KEGG annotations from KEGG into RGD
38. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
39. Rahman SA, etal., Urol Res. 1997;25(5):325-9.
40. RGD automated data pipeline
41. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
42. RGD automated import pipeline for gene-chemical interactions
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Additional References at PubMed
PMID:1871153   PMID:7556058   PMID:8889548   PMID:9465039   PMID:9546397   PMID:9990067   PMID:10192390   PMID:10444069   PMID:11092755   PMID:12085354   PMID:12608731   PMID:12739130  
PMID:12857860   PMID:14562105   PMID:14612438   PMID:14668490   PMID:14718562   PMID:14752097   PMID:15009675   PMID:15086793   PMID:15229288   PMID:16227996   PMID:16254249   PMID:16380373  
PMID:16893896   PMID:17716972   PMID:18321981   PMID:18353247   PMID:18434600   PMID:19066835   PMID:19252502   PMID:19724054   PMID:20080761   PMID:20091025   PMID:20202662   PMID:20208545  
PMID:20424607   PMID:20439489   PMID:20458337   PMID:20711497   PMID:20726229   PMID:21266579   PMID:21499258   PMID:21700773   PMID:22207220   PMID:22456507   PMID:22516433   PMID:22658674  
PMID:22664934   PMID:22871113   PMID:23016877   PMID:23303939   PMID:23384347   PMID:23395379   PMID:23416069   PMID:23447582   PMID:24561039   PMID:24683533   PMID:24769233   PMID:25007852  
PMID:25115800   PMID:26214738   PMID:26432893   PMID:26642240   PMID:27226592   PMID:29302006   PMID:31810121  


Genomics

Comparative Map Data
Tfrc
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21168,163,413 - 68,185,257 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1168,163,413 - 68,185,257 (-)Ensembl
Rnor_6.01171,397,423 - 71,419,263 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1171,397,383 - 71,419,223 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01174,479,841 - 74,502,561 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41169,976,258 - 69,998,098 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11170,034,788 - 70,049,347 (-)NCBI
Celera1167,596,761 - 67,618,555 (-)NCBICelera
Cytogenetic Map11q22NCBI
TFRC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3196,027,183 - 196,082,096 (-)EnsemblGRCh38hg38GRCh38
GRCh383196,018,694 - 196,082,123 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh373195,776,155 - 195,808,961 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363197,260,744 - 197,293,338 (-)NCBINCBI36hg18NCBI36
Build 343197,264,659 - 197,297,251NCBI
Celera3194,360,605 - 194,393,477 (-)NCBI
Cytogenetic Map3q29NCBI
HuRef3193,076,917 - 193,109,375 (-)NCBIHuRef
CHM1_13195,747,516 - 195,780,405 (-)NCBICHM1_1
Tfrc
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391632,427,714 - 32,451,612 (+)NCBIGRCm39mm39
GRCm39 Ensembl1632,427,738 - 32,451,612 (+)Ensembl
GRCm381632,608,896 - 32,632,794 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1632,608,920 - 32,632,794 (+)EnsemblGRCm38mm10GRCm38
MGSCv371632,608,982 - 32,632,880 (+)NCBIGRCm37mm9NCBIm37
MGSCv361632,528,768 - 32,552,537 (+)NCBImm8
Celera1633,088,313 - 33,112,331 (+)NCBICelera
Cytogenetic Map16B3NCBI
cM Map1623.06NCBI
Tfrc
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542012,348,821 - 12,372,691 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542012,348,392 - 12,372,714 (-)NCBIChiLan1.0ChiLan1.0
TFRC
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13203,333,953 - 203,365,586 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3203,333,953 - 203,373,998 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03193,384,817 - 193,417,532 (-)NCBIMhudiblu_PPA_v0panPan3
TFRC
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13329,206,024 - 29,237,221 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3329,208,609 - 29,238,242 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3329,234,803 - 29,256,627 (-)NCBI
ROS_Cfam_1.03329,440,415 - 29,471,780 (-)NCBI
UMICH_Zoey_3.13329,229,617 - 29,251,398 (-)NCBI
UNSW_CanFamBas_1.03329,284,382 - 29,306,157 (-)NCBI
UU_Cfam_GSD_1.03329,905,548 - 29,927,547 (-)NCBI
Tfrc
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602125,156,856 - 125,188,523 (+)NCBI
SpeTri2.0NW_004936784696,738 - 728,385 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TFRC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13133,970,594 - 134,000,278 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113133,976,765 - 133,997,554 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213143,414,634 - 143,435,426 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TFRC
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11591,102,153 - 91,134,994 (+)NCBI
ChlSab1.1 Ensembl1591,102,817 - 91,135,584 (+)Ensembl
Vero_WHO_p1.0NW_02366604164,945,566 - 64,977,969 (+)NCBI
Tfrc
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473061,282,650 - 61,313,487 (-)NCBI


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
4889859Pur28Proteinuria QTL 2819.50.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)114545932375190161Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)115980279482566545Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)115980279482566553Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116611332182169223Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:307
Count of miRNA genes:203
Interacting mature miRNAs:228
Transcripts:ENSRNOT00000002407
Prediction methods:Microtar, Miranda
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 1
Medium 3 43 57 41 18 41 8 11 74 34 39 11 8
Low 1 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_022712 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248463 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC136847 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AI029320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BP500872 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CA509549 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB700894 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB762571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB809947 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473967 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CO398424 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CV111368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CV117299 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CV117527 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM033330 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM123390 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M58040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000002407   ⟹   ENSRNOP00000002407
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1168,163,413 - 68,185,257 (-)Ensembl
Rnor_6.0 Ensembl1171,397,383 - 71,419,223 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000105908   ⟹   ENSRNOP00000097197
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1168,163,413 - 68,179,995 (-)Ensembl
RefSeq Acc Id: NM_022712   ⟹   NP_073203
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21168,163,413 - 68,185,257 (-)NCBI
Rnor_6.01171,397,423 - 71,419,263 (-)NCBI
Rnor_5.01174,479,841 - 74,502,561 (-)NCBI
RGSC_v3.41169,976,258 - 69,998,098 (-)RGD
Celera1167,596,761 - 67,618,555 (-)RGD
Sequence:
RefSeq Acc Id: XM_006248462   ⟹   XP_006248524
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21168,163,413 - 68,185,228 (-)NCBI
Rnor_6.01171,397,424 - 71,419,234 (-)NCBI
Rnor_5.01174,479,841 - 74,502,561 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248463   ⟹   XP_006248525
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21168,163,413 - 68,184,986 (-)NCBI
Rnor_6.01171,397,424 - 71,418,972 (-)NCBI
Rnor_5.01174,479,841 - 74,502,561 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039088614   ⟹   XP_038944542
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21168,163,413 - 68,184,781 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_073203   ⟸   NM_022712
- UniProtKB: G3V679 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248524   ⟸   XM_006248462
- Peptide Label: isoform X1
- UniProtKB: G3V679 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248525   ⟸   XM_006248463
- Peptide Label: isoform X1
- UniProtKB: G3V679 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002407   ⟸   ENSRNOT00000002407
RefSeq Acc Id: XP_038944542   ⟸   XM_039088614
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000097197   ⟸   ENSRNOT00000105908
Protein Domains
PA

Transcriptome

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

Promoters
RGD ID:13698208
Promoter ID:EPDNEW_R8732
Type:multiple initiation site
Name:Tfrc_1
Description:transferrin receptor
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_6.01171,419,206 - 71,419,266EPDNEW

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)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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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:70488 AgrOrtholog
Ensembl Genes ENSRNOG00000001766 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000002407 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000002407 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.930.40 UniProtKB/Swiss-Prot
InterPro PA_domain UniProtKB/Swiss-Prot
  Peptidase_M28 UniProtKB/Swiss-Prot
  Peptidase_M28B UniProtKB/Swiss-Prot
  TfR UniProtKB/Swiss-Prot
  TFR-like_dimer_dom UniProtKB/Swiss-Prot
  TFR-like_dimer_dom_sf UniProtKB/Swiss-Prot
  TfR1/2_PA UniProtKB/Swiss-Prot
KEGG Report rno:64678 UniProtKB/Swiss-Prot
NCBI Gene 64678 ENTREZGENE
PANTHER PTHR10404 UniProtKB/Swiss-Prot
  PTHR10404:SF26 UniProtKB/Swiss-Prot
Pfam Peptidase_M28 UniProtKB/Swiss-Prot
  PF02225 UniProtKB/Swiss-Prot
  TFR_dimer UniProtKB/Swiss-Prot
PhenoGen Tfrc PhenoGen
Superfamily-SCOP SSF47672 UniProtKB/Swiss-Prot
UniProt G3V679 ENTREZGENE
  Q99376 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary G3V679 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Tfrc  Transferrin receptor    transferrin receptor  Symbol and Name status set to approved 625702 APPROVED
2002-06-10 Tfrc  transferrin receptor      Symbol and Name status set to provisional 70585 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression mRNA expression levels in brain remain unaffected by iron status 737676
gene_process delivers of serum iron to developing germinal cells in the seminiferous epithelium 70300
gene_process delivers of serum iron to developing germinal cells in the seminiferous epithelium 70322
gene_process involved in iron homeostasis 70300
gene_process involved in iron homeostasis 70322