Tf (transferrin) - Rat Genome Database

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Gene: Tf (transferrin) Rattus norvegicus
Analyze
Symbol: Tf
Name: transferrin
RGD ID: 3845
Description: Enables ferric iron binding activity. Involved in several processes, including cellular response to cAMP; cellular response to follicle-stimulating hormone stimulus; and regulation of nervous system development. Located in basement membrane; cell tip; and extracellular space. Used to study hepatitis. Biomarker of anemia and obesity. Human ortholog(s) of this gene implicated in anemia; atransferrinemia; glucose metabolism disease (multiple); iron deficiency anemia; and restless legs syndrome. Orthologous to human TF (transferrin); PARTICIPATES IN ephrin - ephrin receptor bidirectional signaling axis; hypoxia inducible factor pathway; iron uptake pathway; INTERACTS WITH (+)-schisandrin B; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: beta-1 metal-binding globulin; liver regeneration-related protein LRRG03; MGC93500; serotransferrin; siderophilin; Tfn; Trf
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28103,789,780 - 103,816,487 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl8103,767,995 - 103,816,511 (-)Ensembl
Rnor_6.08111,694,570 - 111,721,275 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8111,673,547 - 111,721,333 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08111,085,984 - 111,112,688 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48108,217,774 - 108,244,487 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18108,237,229 - 108,263,942 (-)NCBI
Celera8103,167,171 - 103,194,045 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrabromodibenzodioxine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-acetamidofluorene  (EXP)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP)
3,3',5-triiodo-L-thyronine  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-nonylphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acetylsalicylic acid  (ISO)
acrylamide  (EXP,ISO)
acrylic acid  (EXP)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
alcohol  (ISO)
all-trans-retinoic acid  (EXP)
aluminium atom  (ISO)
aluminium(0)  (ISO)
amiodarone  (EXP)
amphetamine  (EXP)
aniline  (EXP)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
asbestos  (ISO)
astemizole  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
bexarotene  (EXP)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
bromobenzene  (EXP)
busulfan  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
chlordecone  (ISO)
chlorpromazine  (ISO)
chlorpyrifos  (ISO)
chromium atom  (EXP,ISO)
chromium(6+)  (EXP,ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (EXP,ISO)
citric acid  (ISO)
clofibrate  (EXP,ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (EXP,ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(I) chloride  (ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
cortisol  (ISO)
Cuprizon  (EXP)
curcumin  (ISO)
cyclosporin A  (ISO)
cypermethrin  (ISO)
DDE  (EXP)
deferiprone  (ISO)
deoxynivalenol  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (EXP,ISO)
dextran sulfate  (ISO)
Diacetylmonoxime  (ISO)
dibenzo[a,l]pyrene  (ISO)
dichloroacetic acid  (ISO)
dichlorvos  (ISO)
dicrotophos  (ISO)
diethyl maleate  (EXP)
diiodine  (ISO)
diisopropyl fluorophosphate  (EXP,ISO)
dimethyl sulfoxide  (EXP)
disodium selenite  (ISO)
diuron  (EXP)
divanadium pentaoxide  (EXP)
doxorubicin  (EXP,ISO)
endosulfan  (EXP)
erastin  (EXP)
ethanol  (ISO)
ethylene glycol  (EXP)
ferric ammonium citrate  (ISO)
ferric oxide  (EXP)
ferric pyrophosphate  (ISO)
flavonoids  (EXP)
flutamide  (EXP)
folic acid  (ISO)
gallium atom  (EXP,ISO)
genistein  (ISO)
glafenine  (EXP)
GW 4064  (ISO)
haloperidol  (ISO)
hexachlorobenzene  (EXP)
hydrogen peroxide  (ISO)
hydrogen sulfide  (ISO)
indometacin  (ISO)
iodide salt  (EXP)
iron atom  (EXP,ISO)
iron trichloride  (ISO)
iron(0)  (EXP,ISO)
iron(2+) sulfate (anhydrous)  (EXP,ISO)
iron(III) citrate  (ISO)
isoniazide  (EXP)
ketamine  (EXP)
L-ascorbic acid  (EXP,ISO)
lead diacetate  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
Licochalcone B  (ISO)
lipopolysaccharide  (ISO)
LY294002  (ISO)
manganese atom  (EXP,ISO)
manganese(0)  (EXP,ISO)
melatonin  (EXP)
mercury atom  (ISO)
mercury dichloride  (EXP)
mercury(0)  (ISO)
methapyrilene  (EXP,ISO)
methyl beta-cyclodextrin  (ISO)
monocrotaline  (ISO)
N-ethylmaleimide  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosomorpholine  (EXP)
N-Nitrosopyrrolidine  (ISO)
naphthalene  (ISO)
nefazodone  (EXP)
nickel atom  (ISO)
nitrofen  (EXP)
Nonylphenol  (EXP)
O-methyleugenol  (ISO)
ochratoxin A  (EXP)
okadaic acid  (ISO)
orlistat  (ISO)
oxaliplatin  (EXP)
ozone  (EXP)
paracetamol  (EXP,ISO)
paraquat  (ISO)
pentanal  (ISO)
perfluorononanoic acid  (EXP)
perfluorooctanoic acid  (ISO)
permethrin  (EXP)
phenobarbital  (EXP)
phenylarsine oxide  (ISO)
PhIP  (EXP)
pirinixic acid  (EXP,ISO)
prednisolone  (ISO)
propanal  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
resveratrol  (EXP,ISO)
Rhapontigenin  (ISO)
S-adenosyl-L-methioninate  (EXP)
S-adenosyl-L-methionine  (EXP)
sarin  (ISO)
SB 431542  (ISO)
silicon dioxide  (EXP,ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
Soman  (ISO)
splitomicin  (ISO)
succimer  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP)
thioacetamide  (EXP)
titanium atom  (ISO)
titanium dioxide  (ISO)
tributylstannane  (EXP)
triphenyl phosphate  (EXP)
Triptolide  (EXP)
triptonide  (ISO)
tungsten  (ISO)
uranium atom  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
zearalenone  (ISO)
zinc atom  (ISO)
zinc dichloride  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Abe S, etal., Biol Pharm Bull 2001 Dec;24(12):1343-6.
2. Adamo AM, etal., Exp Neurol. 2006 Apr;198(2):519-29. Epub 2006 Feb 14.
3. Aquino JB, etal., Brain Res. 2006 Oct 30;1117(1):80-91. Epub 2006 Sep 28.
4. Barcelo-Batllori S, etal., Proteomics. 2005 Dec;5(18):4927-35.
5. Beck-da-Silva L, etal., Int J Cardiol. 2013 May 13. pii: S0167-5273(13)00848-6. doi: 10.1016/j.ijcard.2013.04.181.
6. Brunner HI, etal., Arthritis Rheum. 2012 Aug;64(8):2687-97. doi: 10.1002/art.34426.
7. Cymerys M, etal., Pol Merkur Lekarski. 2003 Oct;15(88):352-4; discussion 354-5.
8. da Silva CB, etal., Exp Parasitol. 2013 Mar;133(3):357-64. doi: 10.1016/j.exppara.2012.12.010. Epub 2012 Dec 25.
9. Escriva H, etal., Biochem J 1995 Apr 1;307 ( Pt 1):47-55.
10. Fumeron F, etal., Diabetes Care. 2006 Sep;29(9):2090-4.
11. Garcia CI, etal., Glia 2003 Jun;42(4):406-16.
12. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
13. Gelly JL, etal., Histochemistry. 1991;96(4):323-6.
14. Guardia Clausi M, etal., Glia. 2012 Oct;60(10):1540-54. doi: 10.1002/glia.22374. Epub 2012 Jun 26.
15. Han J, etal., Nutr Neurosci 2003 Feb;6(1):1-10.
16. Hwang HS, etal., Int J Med Sci. 2012;9(8):634-41. doi: 10.7150/ijms.4969. Epub 2012 Sep 19.
17. Kim SW, etal., J Proteome Res. 2006 Nov;5(11):2966-76.
18. Kolachala VL, etal., World J Gastroenterol. 2007 Feb 21;13(7):1042-52.
19. Lane DJ, etal., Biochim Biophys Acta. 2015 May;1853(5):1130-44. doi: 10.1016/j.bbamcr.2015.01.021. Epub 2015 Feb 4.
20. Le Guenno G, etal., Diabetes Res Clin Pract. 2007 Mar 8;.
21. Lee PL, etal., Br J Haematol. 2001 Nov;115(2):329-33.
22. Li Y, etal., BMC Nephrol. 2012 May 20;13:29. doi: 10.1186/1471-2369-13-29.
23. Lin CH, etal., Eur J Neurol. 2013 Feb 1. doi: 10.1111/ene.12095.
24. Liu GH, etal., Zhonghua Nan Ke Xue. 2006 Feb;12(2):104-7, 111.
25. Mangano K, etal., Clin Exp Immunol. 2012 Sep;169(3):244-52. doi: 10.1111/j.1365-2249.2012.04619.x.
26. Mazurek B, etal., HNO. 2006 Sep;54(9):689-97.
27. MGD data from the GO Consortium
28. Moshtaghie M, etal., J Physiol Biochem. 2013 Jun;69(2):297-304. doi: 10.1007/s13105-012-0212-9. Epub 2012 Sep 25.
29. Muir T, etal., Mol Endocrinol. 2005 Aug;19(8):2164-74. Epub 2005 Apr 14.
30. OMIM Disease Annotation Pipeline
31. Paez PM, etal., Dev Neurosci 2002;24(1):47-58.
32. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
33. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
34. RGD automated import pipeline for gene-chemical interactions
35. Shao J, etal., Acta Neurochir Suppl. 2006;96:183-7.
36. Sheikh N, etal., Lab Invest. 2007 Apr 9;.
37. Silvestroff L, etal., ASN Neuro. 2013 Mar 8;5(1):e00107. doi: 10.1042/AN20120075.
38. Tao Q, etal., Zhonghua Gan Zang Bing Za Zhi. 2012 Feb;20(2):116-21. doi: 10.3760/cma.j.issn.1007-3418.2012.02.010.
39. Vari IS, etal., Diabetes Care. 2007 Apr 6;.
40. Yasuda J, etal., Biochem Biophys Res Commun. 2006 Mar 31;342(1):127-34. Epub 2006 Feb 2.
41. Zhang L, etal., Neurol Sci. 2013 May;34(5):639-45. doi: 10.1007/s10072-012-1090-1. Epub 2012 Apr 27.
42. Zou C, etal., Endocrine. 2013 Mar 7.
Additional References at PubMed
PMID:500689   PMID:1791188   PMID:3023031   PMID:3046665   PMID:6236811   PMID:8829802   PMID:9420335   PMID:9546397   PMID:9990067   PMID:11208127   PMID:11230685   PMID:11739192  
PMID:12121420   PMID:12477932   PMID:12704209   PMID:12857860   PMID:14701678   PMID:15047867   PMID:15229288   PMID:15247266   PMID:15292400   PMID:15469901   PMID:15489334   PMID:15637325  
PMID:15880641   PMID:16195351   PMID:16227996   PMID:16497717   PMID:16502470   PMID:17628542   PMID:18353247   PMID:18353773   PMID:18459135   PMID:18477453   PMID:18511206   PMID:18708193  
PMID:19056867   PMID:19061864   PMID:19250966   PMID:19252502   PMID:19464997   PMID:20080761   PMID:20202662   PMID:20427320   PMID:21195069   PMID:22206666   PMID:22479482   PMID:22516433  
PMID:22664934   PMID:23012479   PMID:23303939   PMID:23376485   PMID:23416069   PMID:23533145   PMID:23580065   PMID:24035762   PMID:25595122   PMID:25649872   PMID:26316108   PMID:29248829  
PMID:29388418   PMID:29476059   PMID:30758712  


Genomics

Candidate Gene Status
Tf is a candidate Gene for QTL Hcar3
Comparative Map Data
Tf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28103,789,780 - 103,816,487 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl8103,767,995 - 103,816,511 (-)Ensembl
Rnor_6.08111,694,570 - 111,721,275 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8111,673,547 - 111,721,333 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08111,085,984 - 111,112,688 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48108,217,774 - 108,244,487 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18108,237,229 - 108,263,942 (-)NCBI
Celera8103,167,171 - 103,194,045 (-)NCBICelera
Cytogenetic Map8q32NCBI
TF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3133,746,040 - 133,796,641 (+)EnsemblGRCh38hg38GRCh38
GRCh383133,661,998 - 133,796,641 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373133,380,842 - 133,515,485 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363134,947,925 - 134,980,325 (+)NCBINCBI36hg18NCBI36
Build 343134,947,932 - 134,980,333NCBI
Celera3131,892,092 - 131,924,970 (+)NCBI
Cytogenetic Map3q22.1NCBI
HuRef3130,844,635 - 130,877,514 (+)NCBIHuRef
CHM1_13133,428,386 - 133,461,264 (+)NCBICHM1_1
Trf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399103,086,075 - 103,107,485 (-)NCBIGRCm39mm39
GRCm39 Ensembl9103,081,200 - 103,107,643 (-)Ensembl
GRCm389103,208,876 - 103,230,286 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9103,204,001 - 103,230,444 (-)EnsemblGRCm38mm10GRCm38
MGSCv379103,111,206 - 103,132,616 (-)NCBIGRCm37mm9NCBIm37
MGSCv369103,067,026 - 103,088,436 (-)NCBImm8
Celera9102,759,422 - 102,780,824 (-)NCBICelera
Cytogenetic Map9F1NCBI
cM Map955.03NCBI
LOC100995326
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13138,274,159 - 138,305,481 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3138,274,159 - 138,305,476 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03130,799,063 - 130,830,227 (+)NCBIMhudiblu_PPA_v0panPan3
LOC477072
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12330,658,250 - 30,683,816 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2330,595,704 - 30,683,845 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2330,637,375 - 30,662,940 (+)NCBI
ROS_Cfam_1.02331,178,649 - 31,204,226 (+)NCBI
UMICH_Zoey_3.12330,872,448 - 30,898,034 (+)NCBI
UNSW_CanFamBas_1.02330,930,277 - 30,955,845 (+)NCBI
UU_Cfam_GSD_1.02331,177,861 - 31,203,421 (+)NCBI
LOC101970551
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560270,095,470 - 70,135,492 (+)NCBI
SpeTri2.0NW_0049365296,856,042 - 6,895,989 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1374,930,655 - 74,970,599 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11374,930,655 - 74,970,599 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21382,429,021 - 82,469,005 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap13q31NCBI
TF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11556,586,311 - 56,618,304 (-)NCBI
ChlSab1.1 Ensembl1556,586,104 - 56,618,149 (-)Ensembl
Vero_WHO_p1.0NW_02366604129,568,907 - 29,601,746 (-)NCBI

Position Markers
Trf  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28103,816,628 - 103,816,847 (+)MAPPERmRatBN7.2
Rnor_6.08111,721,417 - 111,721,635NCBIRnor6.0
Rnor_5.08111,112,830 - 111,113,048UniSTSRnor5.0
RGSC_v3.48108,244,629 - 108,244,847UniSTSRGSC3.4
Celera8103,194,187 - 103,194,402UniSTS
Cytogenetic Map8q32UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
631217Activ1Activity QTL 115.9voluntary movement trait (VT:0003491)number of photobeam interruptions in an experimental apparatus (CMO:0001517)8102370617108923645Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:210
Count of miRNA genes:95
Interacting mature miRNAs:105
Transcripts:ENSRNOT00000012725, ENSRNOT00000012946, ENSRNOT00000045628
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 43 37 37
Medium 3 43 20 4 19 4 8 11 74 35 41 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001013110 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC119318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF468455 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF476964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY327504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC087021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D38380 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209524 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209752 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209794 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210327 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210637 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210903 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211053 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211385 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211460 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218210 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219264 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219315 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219349 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219664 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M26113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M27966 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X77158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000012725   ⟹   ENSRNOP00000012725
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8103,767,995 - 103,816,511 (-)Ensembl
Rnor_6.0 Ensembl8111,673,547 - 111,721,333 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000045628   ⟹   ENSRNOP00000045637
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8103,789,784 - 103,816,511 (-)Ensembl
Rnor_6.0 Ensembl8111,694,566 - 111,721,303 (-)Ensembl
RefSeq Acc Id: NM_001013110   ⟹   NP_001013128
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28103,789,780 - 103,816,487 (-)NCBI
Rnor_6.08111,694,570 - 111,721,275 (-)NCBI
Rnor_5.08111,085,984 - 111,112,688 (-)NCBI
RGSC_v3.48108,217,774 - 108,244,487 (-)RGD
Celera8103,167,171 - 103,194,045 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001013128   ⟸   NM_001013110
- Peptide Label: precursor
- UniProtKB: P12346 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000045637   ⟸   ENSRNOT00000045628
RefSeq Acc Id: ENSRNOP00000012725   ⟸   ENSRNOT00000012725
Protein Domains
Transferrin-like

Transcriptome

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

Promoters
RGD ID:13696228
Promoter ID:EPDNEW_R6753
Type:multiple initiation site
Name:Tf_1
Description:transferrin
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_6.08111,721,296 - 111,721,356EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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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:3845 AgrOrtholog
Ensembl Genes ENSRNOG00000030625 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000012725 UniProtKB/TrEMBL
  ENSRNOP00000045637 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000012725 UniProtKB/TrEMBL
  ENSRNOT00000045628 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7132382 IMAGE-MGC_LOAD
InterPro P-loop_NTPase UniProtKB/TrEMBL
  Serotransferrin_mammal UniProtKB/Swiss-Prot
  SRP_receptor_beta_su UniProtKB/TrEMBL
  Transferrin UniProtKB/Swiss-Prot
  Transferrin-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transferrin_Fe_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24825 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93500 IMAGE-MGC_LOAD
NCBI Gene 24825 ENTREZGENE
Pfam SRPRB UniProtKB/TrEMBL
  Transferrin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tf PhenoGen
PIRSF Serotransferrin UniProtKB/Swiss-Prot
  Transferrin UniProtKB/Swiss-Prot
PRINTS TRANSFERRIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE TRANSFERRIN_LIKE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSFERRIN_LIKE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSFERRIN_LIKE_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSFERRIN_LIKE_4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART TR_FER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A0G2QC06_RAT UniProtKB/TrEMBL
  P12346 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q63602 UniProtKB/Swiss-Prot
  Q64628 UniProtKB/Swiss-Prot
  Q64630 UniProtKB/Swiss-Prot
  Q7TNX0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-23 Tf  transferrin  Trf  transferrin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-15 Trf  transferrin  Tf  transferrin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Tf  Transferrin      Symbol and Name status set to approved 70586 APPROVED