Slc2a4 (solute carrier family 2 member 4) - Rat Genome Database

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Gene: Slc2a4 (solute carrier family 2 member 4) Rattus norvegicus
Analyze
Symbol: Slc2a4
Name: solute carrier family 2 member 4
RGD ID: 2711
Description: Enables D-glucose transmembrane transporter activity. Involved in several processes, including glucose import in response to insulin stimulus; regulation of synaptic vesicle budding from presynaptic endocytic zone membrane; and response to ethanol. Acts upstream of or within with a positive effect on long-term memory. Acts upstream of or within with a negative effect on short-term memory. Acts upstream of or within learning or memory and positive regulation of brain-derived neurotrophic factor receptor signaling pathway. Located in several cellular components, including T-tubule; clathrin-coated pit; and cytoplasmic vesicle. Is active in presynapse. Colocalizes with vesicle. Biomarker of pulmonary hypertension. Human ortholog(s) of this gene implicated in type 2 diabetes mellitus. Orthologous to human SLC2A4 (solute carrier family 2 member 4); PARTICIPATES IN insulin responsive facilitative sugar transporter mediated glucose transport pathway; facilitative sugar transporter mediated glucose transport pathway; insulin signaling pathway; INTERACTS WITH (R)-carnitine; (R,R)-tramadol; (S)-naringenin.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: glucose transporter 4 insuline-responsive; glucose transporter 4, insuline-responsive; glucose transporter type 4, insulin-responsive; GLUT-4; Glut4; insulin responsive glucose transporter; MGC93607; solute carrier family 2 (facilitated glucose transporter) member 4; solute carrier family 2 (facilitated glucose transporter), member 4; solute carrier family 2 , member 4; solute carrier family 2, facilitated glucose transporter member 4; solute carrier family 2, member 4
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
mRatBN7.21054,666,015 - 54,671,581 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1054,666,015 - 54,671,565 (-)Ensembl
Rnor_6.01056,552,921 - 56,558,562 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1056,552,983 - 56,558,487 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01056,298,102 - 56,303,687 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41056,786,705 - 56,792,209 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11056,800,327 - 56,805,832 (-)NCBI
Celera1053,819,953 - 53,825,446 (-)NCBICelera
Cytogenetic Map10q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(R)-carnitine  (EXP)
(R,R)-tramadol  (EXP)
(S)-naringenin  (EXP)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-thiazolidine-2,4-dione  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-amino-2-deoxy-D-glucopyranose  (EXP,ISO)
2-chloroethanol  (ISO)
2-deoxy-D-glucose  (EXP,ISO)
3,3',5'-triiodo-L-thyronine  (EXP)
3,3',5'-triiodothyronine  (EXP)
3,3',5-triiodo-L-thyronine  (ISO)
3,5-diethoxycarbonyl-1,4-dihydrocollidine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-phenylprop-2-enal  (EXP)
4'-Methoxychalcone  (ISO)
4-methyl-2-oxopentanoic acid  (ISO)
4-phenylbutyric acid  (EXP,ISO)
5-(tetradecyloxy)-2-furoic acid  (ISO)
6-propyl-2-thiouracil  (EXP)
9-cis,11-trans-octadecadienoic acid  (ISO)
9-cis-retinoic acid  (EXP)
acarbose  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
AICA ribonucleotide  (EXP,ISO)
aldehydo-D-glucosamine  (EXP,ISO)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (EXP)
alloxan  (EXP,ISO)
ammonium chloride  (EXP)
apigenin  (ISO)
arecoline  (EXP)
aristolochic acid  (ISO)
arotinoid acid  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (EXP,ISO)
atorvastatin calcium  (ISO)
benzo[a]pyrene  (ISO)
berberine  (EXP)
beta-carotene  (ISO)
beta-D-glucosamine  (EXP,ISO)
beta-hexachlorocyclohexane  (EXP)
bexarotene  (ISO)
bezafibrate  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
boric acid  (ISO)
butan-1-ol  (EXP)
butanal  (ISO)
butyric acid  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
capsaicin  (ISO)
CARBENOXOLONE  (EXP)
carbon nanotube  (ISO)
chloroethene  (ISO)
chlorogenic acid  (ISO)
chloroquine  (EXP)
chlorpyrifos  (EXP)
chromium atom  (EXP,ISO)
chromium(3+) trichloride  (ISO)
chromium(6+)  (EXP)
ciguatoxin CTX1B  (ISO)
cis-caffeic acid  (ISO)
cobalt dichloride  (ISO)
colforsin daropate hydrochloride  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
corticosterone  (EXP,ISO)
cortisone  (ISO)
D-glucose  (EXP,ISO)
DDE  (ISO)
DDT  (EXP,ISO)
decabromodiphenyl ether  (ISO)
Deoxycorticosterone acetate  (EXP)
desferrioxamine B  (ISO)
dexamethasone  (ISO)
diazinon  (EXP)
dimercaprol  (EXP)
dimethylarsinic acid  (EXP)
dioxygen  (ISO)
divanadium pentaoxide  (ISO)
dopamine  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (EXP)
ethanol  (ISO)
eugenol  (EXP,ISO)
fenoldopam  (EXP)
ferulic acid  (ISO)
fipronil  (ISO)
fisetin  (ISO)
fructose  (EXP,ISO)
fulvestrant  (EXP)
Fusaric acid  (ISO)
gallein  (EXP)
genistein  (EXP,ISO)
gingerol  (ISO)
ginsenoside Re  (EXP,ISO)
glucose  (EXP,ISO)
glutathione disulfide  (ISO)
glyburide  (EXP)
glyphosate  (EXP)
haloperidol  (ISO)
hemin  (EXP)
heptachlor  (EXP)
hesperidin  (ISO)
hexachlorobenzene  (EXP)
hexadecanoic acid  (EXP,ISO)
hydrazines  (ISO)
imidacloprid  (EXP,ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indinavir  (EXP)
indometacin  (ISO)
isoliquiritigenin  (ISO)
isoprenaline  (EXP)
isotretinoin  (EXP)
ivermectin  (ISO)
kaempferol  (ISO)
L-ascorbic acid  (EXP,ISO)
L-methionine  (ISO)
leflunomide  (ISO)
letrozole  (EXP)
lipopolysaccharide  (ISO)
luteolin  (ISO)
LY294002  (ISO)
mangiferin  (EXP,ISO)
melatonin  (EXP,ISO)
meldonium  (ISO)
mercury atom  (EXP)
mercury dichloride  (ISO)
mercury(0)  (EXP)
metformin  (EXP,ISO)
methapyrilene  (ISO)
methyl pyruvate  (ISO)
methylmercury chloride  (ISO)
mirtazapine  (ISO)
mono(2-ethylhexyl) phthalate  (EXP,ISO)
monomethyl succinate  (ISO)
monosodium L-glutamate  (EXP,ISO)
myrtenal  (EXP)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (ISO)
N-acetyl-L-cysteine  (ISO)
naloxone  (EXP)
naringin  (ISO)
nicotinamide  (EXP)
nicotinic acid  (EXP)
Niflumic acid  (ISO)
nimesulide  (ISO)
olanzapine  (ISO)
orientin  (ISO)
ozone  (EXP)
paraquat  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
permethrin  (ISO)
phenylarsine oxide  (EXP,ISO)
picolinic acid  (ISO)
pioglitazone  (EXP)
pirinixic acid  (ISO)
platycodin D  (ISO)
plumbagin  (EXP)
pravastatin  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
prochloraz  (ISO)
progesterone  (EXP)
propanal  (ISO)
prostaglandin J2  (EXP)
psoralen  (EXP)
Pyridostigmine bromide  (ISO)
pyruvic acid  (ISO)
quercetin  (EXP,ISO)
raffinose  (EXP,ISO)
raloxifene  (ISO)
resveratrol  (EXP,ISO)
rimonabant  (ISO)
rofecoxib  (ISO)
Rutamarin  (ISO)
sarpogrelate  (EXP)
sildenafil citrate  (ISO)
silibinin  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium azide  (ISO)
sodium chloride  (EXP)
sodium dichromate  (ISO)
streptozocin  (EXP,ISO)
sucrose  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
taurine  (EXP)
tauroursodeoxycholic acid  (EXP,ISO)
testosterone  (ISO)
theaflavin  (ISO)
thiazolidinediones  (ISO)
thyroxine  (ISO)
titanium dioxide  (ISO)
tramadol  (EXP)
trans-caffeic acid  (ISO)
trans-cinnamic acid  (ISO)
tributylstannane  (ISO)
trichloroethene  (EXP,ISO)
triclosan  (ISO)
Triptolide  (EXP,ISO)
triptonide  (ISO)
troglitazone  (EXP,ISO)
U-73122  (EXP)
urethane  (ISO)
valproic acid  (ISO)
valsartan  (EXP)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vancomycin  (ISO)
venlafaxine hydrochloride  (EXP)
vinclozolin  (EXP)
vitamin E  (EXP)
wortmannin  (EXP,ISO)
zaragozic acid A  (EXP,ISO)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
1. Aledo JC, etal., Biochem J. 1997 Aug 1;325 ( Pt 3):727-32.
2. Ashrafi G, etal., Neuron. 2017 Feb 8;93(3):606-615.e3. doi: 10.1016/j.neuron.2016.12.020. Epub 2017 Jan 19.
3. Birnbaum MJ Cell 1989 Apr 21;57(2):305-15.
4. Bouche C, etal., Endocr Rev. 2004 Oct;25(5):807-30.
5. Broderick TL and King TM, Med Sci Monit. 2008 Dec;14(12):BR261-4.
6. Calera MR, etal., J Biol Chem. 1998 Mar 27;273(13):7201-4.
7. Charron MJ, etal., Proc Natl Acad Sci U S A 1989 Apr;86(8):2535-9.
8. Cormont M, etal., J Biol Chem. 1993 Sep 15;268(26):19491-7.
9. Doehner W, etal., Int J Cardiol. 2008 Sep 6.
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11. Foster LJ, etal., J Proteome Res. 2006 Jan;5(1):64-75.
12. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
13. GOA data from the GO Consortium
14. Hah JS, etal., Biochemistry 2002 Dec 3;41(48):14364-71.
15. Holman GD, etal., J Biol Chem. 1990 Oct 25;265(30):18172-9.
16. James DE, etal., Nature. 1989 Mar 2;338(6210):83-7. doi: 10.1038/338083a0.
17. Kasahara T and Kasahara M, Biochim Biophys Acta 1997 Feb 21;1324(1):111-9.
18. Kim JO, etal., Biol Pharm Bull. 2009 Mar;32(3):421-6.
19. Koneru S, etal., Am J Physiol Heart Circ Physiol. 2007 Feb 2;.
20. Kristiansen S, etal., Am J Physiol Endocrinol Metab 2001 Sep;281(3):E608-18.
21. Kupriyanova TA and Kandror KV, J Biol Chem. 1999 Jan 15;274(3):1458-64.
22. Kusari J, etal., J Clin Invest. 1991 Oct;88(4):1323-30.
23. Larance M, etal., Mol Endocrinol. 2008 Feb;22(2):226-33. Epub 2007 Aug 23.
24. Lawrence SP, etal., Biochem J. 2010 Dec 15;432(3):515-23. doi: 10.1042/BJ20100717.
25. Liu L, etal., Mol Biol Cell. 2006 Oct;17(10):4249-56. Epub 2006 Jul 26.
26. Lu H, etal., Cardiovasc Res. 2010 Jun 1;86(3):410-20. doi: 10.1093/cvr/cvq010. Epub 2010 Jan 15.
27. Malide D, etal., FEBS Lett. 1997 Jun 16;409(3):461-8.
28. MGD data from the GO Consortium
29. NCBI rat LocusLink and RefSeq merged data July 26, 2002
30. Nedvedova I, etal., Physiol Genomics. 2018 Jul 1;50(7):532-541. doi: 10.1152/physiolgenomics.00040.2017. Epub 2018 Apr 20.
31. Ngarmukos C, etal., Brain Res. 2001 May 4;900(1):1-8. doi: 10.1016/s0006-8993(01)02184-9.
32. OMIM Disease Annotation Pipeline
33. Pearson-Leary J and McNay EC, J Neurosci. 2016 Nov 23;36(47):11851-11864. doi: 10.1523/JNEUROSCI.1700-16.2016.
34. Pipeline to import KEGG annotations from KEGG into RGD
35. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
36. Pipeline to import SMPDB annotations from SMPDB into RGD
37. RGD automated data pipeline
38. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
39. RGD automated import pipeline for gene-chemical interactions
40. Ricort JM, etal., FEBS Lett. 1994 Jun 20;347(1):42-4.
41. Rodnick KJ, etal., Am J Physiol. 1992 Jan;262(1 Pt 1):C9-14.
42. Scheepers A, etal., JPEN J Parenter Enteral Nutr. 2004 Sep-Oct;28(5):364-71.
43. Sennott J, etal., Pathophysiology. 2008 Oct;15(3):173-9. Epub 2008 Jul 23.
44. Sherman LA, etal., Endocrinology. 1996 Jan;137(1):266-73.
45. Slot JW, etal., Proc Natl Acad Sci U S A. 1991 Sep 1;88(17):7815-9.
46. St-Denis JF, etal., Biochem J 1999 Mar 15;338 ( Pt 3):709-15.
47. Tardy-Cantalupi I, etal., J Mol Cell Cardiol. 1999 May;31(5):1143-55.
48. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
49. Thoidis G and Kandror KV, Traffic. 2001 Aug;2(8):577-87.
50. Uphues I, etal., Biochem J. 1994 Jul 1;301 ( Pt 1):177-82.
51. Vettor R, etal., Int J Obes Relat Metab Disord 2002 Jun;26(6):838-47.
52. Villanueva-Penacarrillo ML, etal., Endocrine 2001 Jul;15(2):241-8.
53. Watson RT and Pessin JE, Cell Signal. 2007 Nov;19(11):2209-17. Epub 2007 Jun 21.
54. Yang J, etal., Am J Physiol Endocrinol Metab. 2002 Dec;283(6):E1299-307. Epub 2002 Aug 13.
55. Zaid H, etal., Biochem J. 2008 Jul 15;413(2):201-15.
56. Zhao LN, etal., Br J Nutr. 2009 May;101(10):1467-73. Epub 2008 Oct 30.
Additional References at PubMed
PMID:1618860   PMID:1651337   PMID:7545962   PMID:7720644   PMID:10394363   PMID:10444069   PMID:11689011   PMID:11718554   PMID:11879194   PMID:11919487   PMID:11934664   PMID:11982503  
PMID:11989821   PMID:12002265   PMID:12079879   PMID:12097321   PMID:12189582   PMID:12297296   PMID:12467732   PMID:12477932   PMID:12490950   PMID:12496137   PMID:12531786   PMID:12556481  
PMID:12631717   PMID:12637564   PMID:12777391   PMID:12782634   PMID:12799316   PMID:12832401   PMID:12917015   PMID:14562105   PMID:14741039   PMID:15015152   PMID:15117888   PMID:15182197  
PMID:15247264   PMID:15247266   PMID:15466888   PMID:15489334   PMID:15494613   PMID:15546921   PMID:15557332   PMID:15591781   PMID:15625086   PMID:15729573   PMID:15734836   PMID:15764607  
PMID:15797240   PMID:15800058   PMID:15857891   PMID:15866888   PMID:15905322   PMID:15935991   PMID:15955810   PMID:16024167   PMID:16096283   PMID:16154100   PMID:16273324   PMID:16319996  
PMID:16418206   PMID:16455755   PMID:16622606   PMID:16647043   PMID:16670091   PMID:16774991   PMID:16787385   PMID:16902066   PMID:16985263   PMID:17003038   PMID:17003346   PMID:17189352  
PMID:17198541   PMID:17416968   PMID:17426391   PMID:17532293   PMID:17550999   PMID:17666490   PMID:17709177   PMID:18067996   PMID:18084728   PMID:18162526   PMID:18163380   PMID:18164589  
PMID:18167317   PMID:18227281   PMID:18326493   PMID:18335580   PMID:18343214   PMID:18435821   PMID:18492766   PMID:18511518   PMID:18617516   PMID:18619553   PMID:18647882   PMID:18650314  
PMID:18692545   PMID:18701652   PMID:18797165   PMID:18923160   PMID:19155211   PMID:19177156   PMID:19188436   PMID:19228889   PMID:19273501   PMID:19386915   PMID:19478182   PMID:19509061  
PMID:19523145   PMID:19546347   PMID:19563078   PMID:19590752   PMID:19615701   PMID:19675279   PMID:19679110   PMID:19706162   PMID:19720047   PMID:19722251   PMID:19724054   PMID:19864425  
PMID:19940039   PMID:20024634   PMID:20173759   PMID:20363751   PMID:20371884   PMID:20383279   PMID:20460104   PMID:20582536   PMID:20584641   PMID:20698833   PMID:20739464   PMID:20816091  
PMID:20938990   PMID:21029425   PMID:21041651   PMID:21332027   PMID:21347724   PMID:21454690   PMID:21773965   PMID:21788123   PMID:21799128   PMID:21907143   PMID:22015196   PMID:22079207  
PMID:22079346   PMID:22125125   PMID:22136156   PMID:22247557   PMID:22319399   PMID:22488520   PMID:22610671   PMID:22897936   PMID:22918957   PMID:22960630   PMID:22996137   PMID:23035738  
PMID:23041416   PMID:23049745   PMID:23104384   PMID:23238530   PMID:23285235   PMID:23292098   PMID:23355380   PMID:23427263   PMID:23520472   PMID:23625195   PMID:23640896   PMID:23652351  
PMID:23715867   PMID:23717693   PMID:23750537   PMID:23757167   PMID:23940308   PMID:24023607   PMID:24130215   PMID:24326422   PMID:24329691   PMID:24361184   PMID:24382486   PMID:24478457  
PMID:24500986   PMID:24708213   PMID:24801390   PMID:24895286   PMID:25025572   PMID:25086780   PMID:25097857   PMID:25445608   PMID:25470523   PMID:25491725   PMID:25666964   PMID:25713812  
PMID:26240143   PMID:26503060   PMID:26538022   PMID:26629404   PMID:26784579   PMID:26854998   PMID:27041232   PMID:27133433   PMID:27295130   PMID:27322312   PMID:27354378   PMID:27614316  
PMID:27739494   PMID:27783302   PMID:27797912   PMID:28177731   PMID:28374891   PMID:28495883   PMID:28500736   PMID:28570686   PMID:28648676   PMID:28808062   PMID:29247648   PMID:29794037  
PMID:29802324   PMID:29806984   PMID:30170066   PMID:30296507   PMID:30528377   PMID:30837370   PMID:31594761   PMID:31669265   PMID:31767340   PMID:31914838   PMID:32024865   PMID:32454459  
PMID:32542704   PMID:33085741   PMID:33393983   PMID:33724628   PMID:34206320  


Genomics

Candidate Gene Status
Slc2a4 is a candidate Gene for QTL Bmd4
Comparative Map Data
Slc2a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21054,666,015 - 54,671,581 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1054,666,015 - 54,671,565 (-)Ensembl
Rnor_6.01056,552,921 - 56,558,562 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1056,552,983 - 56,558,487 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01056,298,102 - 56,303,687 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41056,786,705 - 56,792,209 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11056,800,327 - 56,805,832 (-)NCBI
Celera1053,819,953 - 53,825,446 (-)NCBICelera
Cytogenetic Map10q24NCBI
SLC2A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl177,281,718 - 7,288,257 (+)EnsemblGRCh38hg38GRCh38
GRCh38177,281,718 - 7,288,257 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37177,185,037 - 7,191,576 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36177,125,778 - 7,132,091 (+)NCBINCBI36hg18NCBI36
Build 34177,125,834 - 7,131,125NCBI
Celera177,209,701 - 7,216,014 (+)NCBI
Cytogenetic Map17p13.1NCBI
HuRef177,076,412 - 7,082,727 (+)NCBIHuRef
CHM1_1177,193,837 - 7,200,150 (+)NCBICHM1_1
Slc2a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391169,833,112 - 69,839,040 (-)NCBIGRCm39mm39
GRCm39 Ensembl1169,833,365 - 69,839,014 (-)Ensembl
GRCm381169,942,286 - 69,948,216 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1169,942,539 - 69,948,188 (-)EnsemblGRCm38mm10GRCm38
MGSCv371169,755,788 - 69,761,692 (-)NCBIGRCm37mm9NCBIm37
MGSCv361169,758,738 - 69,764,329 (-)NCBImm8
Celera1177,490,257 - 77,496,161 (-)NCBICelera
Cytogenetic Map11B3NCBI
cM Map1142.93NCBI
Slc2a4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554679,630,304 - 9,636,005 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554679,630,304 - 9,636,005 (-)NCBIChiLan1.0ChiLan1.0
SLC2A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1177,299,966 - 7,306,344 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl177,299,966 - 7,306,344 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0177,312,605 - 7,319,430 (+)NCBIMhudiblu_PPA_v0panPan3
SLC2A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1532,238,095 - 32,244,022 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl532,238,095 - 32,244,021 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha532,376,140 - 32,382,065 (+)NCBI
ROS_Cfam_1.0532,343,488 - 32,349,420 (+)NCBI
UMICH_Zoey_3.1532,308,943 - 32,314,868 (+)NCBI
UNSW_CanFamBas_1.0532,267,746 - 32,273,663 (+)NCBI
UU_Cfam_GSD_1.0532,444,733 - 32,450,658 (+)NCBI
Slc2a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560247,093,063 - 47,099,869 (+)NCBI
SpeTri2.0NW_004936595567,267 - 574,051 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC2A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1252,628,450 - 52,634,967 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11252,628,746 - 52,634,965 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21254,810,360 - 54,816,580 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC2A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1166,654,626 - 6,660,640 (+)NCBI
ChlSab1.1 Ensembl166,654,608 - 6,661,495 (+)Ensembl
Vero_WHO_p1.0NW_02366605914,750,453 - 14,756,535 (-)NCBI
Slc2a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247869,903,176 - 9,908,953 (+)NCBI

Position Markers
D10Uwm1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21054,671,889 - 54,672,047 (+)MAPPERmRatBN7.2
Rnor_6.01056,558,857 - 56,559,014NCBIRnor6.0
Rnor_5.01056,303,976 - 56,304,133UniSTSRnor5.0
RGSC_v3.41056,792,578 - 56,792,736RGDRGSC3.4
RGSC_v3.41056,792,579 - 56,792,736UniSTSRGSC3.4
RGSC_v3.11056,806,201 - 56,806,359RGD
Celera1053,825,816 - 53,825,973UniSTS
Cytogenetic Map10q24UniSTS
D10Wox40  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21054,671,851 - 54,672,003 (+)MAPPERmRatBN7.2
Rnor_6.01056,558,819 - 56,558,970NCBIRnor6.0
Rnor_5.01056,303,938 - 56,304,089UniSTSRnor5.0
RGSC_v3.41056,792,541 - 56,792,692UniSTSRGSC3.4
Celera1053,825,778 - 53,825,929UniSTS
Cytogenetic Map10q24UniSTS
D10Wox39  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21054,673,181 - 54,673,268 (+)MAPPERmRatBN7.2
Rnor_6.01056,560,149 - 56,560,235NCBIRnor6.0
Rnor_5.01056,305,268 - 56,305,354UniSTSRnor5.0
RGSC_v3.41056,803,054 - 56,803,140UniSTSRGSC3.4
RGSC_v3.41056,793,871 - 56,793,957UniSTSRGSC3.4
Celera1053,827,108 - 53,827,194UniSTS
Cytogenetic Map10q24UniSTS
Slc2a4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21054,666,184 - 54,666,315 (+)MAPPERmRatBN7.2
Rnor_6.01056,553,153 - 56,553,283NCBIRnor6.0
Rnor_5.01056,298,272 - 56,298,402UniSTSRnor5.0
RGSC_v3.41056,786,875 - 56,787,005UniSTSRGSC3.4
Celera1053,820,123 - 53,820,253UniSTS
Cytogenetic Map10q24UniSTS
D10Wox39  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21054,673,181 - 54,673,269 (+)MAPPERmRatBN7.2
Rnor_6.01056,560,149 - 56,560,236NCBIRnor6.0
Rnor_5.01056,305,268 - 56,305,355UniSTSRnor5.0
RGSC_v3.41056,803,053 - 56,803,140UniSTSRGSC3.4
RGSC_v3.41056,793,871 - 56,793,958UniSTSRGSC3.4
Celera1053,827,108 - 53,827,195UniSTS
Cytogenetic Map10q24UniSTS
UniSTS:547075  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21054,666,204 - 54,667,679 (+)MAPPERmRatBN7.2
Rnor_6.01056,553,173 - 56,554,647NCBIRnor6.0
Rnor_5.01056,298,292 - 56,299,766UniSTSRnor5.0
Celera1053,820,143 - 53,821,617UniSTS
Cytogenetic Map10q24UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103539226764155584Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103539245763642539Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104133325886333258Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104194452678307017Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)14232313287323132Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104232313287323132Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)104287676679813922Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104444169989441699Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104444169989441699Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104444169989441699Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104736947092369470Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)104944455181709989Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)104944455181709989Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)104944455181709989Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105057470795574707Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105112110096121100Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1051770177107211142Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)105177294096772940Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105177461295600334Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105178628291669536Rat
1578762Toxo1Toxoplasma gondii resistance QTL 1brain integrity trait (VT:0010579)percentage of study population displaying Toxoplasma gondii brain cysts at a point in time (CMO:0002028)105220003059378278Rat
1354585Eae18aExperimental allergic encephalomyelitis QTL 18a7.50.0004nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)105379738558445852Rat
2306787Ean3Experimental allergic neuritis QTL 33.1nervous system integrity trait (VT:0010566)body weight loss (CMO:0001399)105379738566979128Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105379749498952626Rat

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir133brno-miR-133b-3pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI19720047
Mir133a1rno-miR-133a-3pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI19720047

Predicted Target Of
Summary Value
Count of predictions:82
Count of miRNA genes:71
Interacting mature miRNAs:73
Transcripts:ENSRNOT00000023256
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 41 11 4 8 11 24 14 7 8
Low 2 33 28 15 28 74 11 27 4
Below cutoff 11 11 11

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000023256   ⟹   ENSRNOP00000023256
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1054,666,023 - 54,671,565 (-)Ensembl
Rnor_6.0 Ensembl1056,552,983 - 56,558,487 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095666   ⟹   ENSRNOP00000090027
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1054,667,419 - 54,671,565 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113573   ⟹   ENSRNOP00000094954
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1054,666,015 - 54,670,162 (-)Ensembl
RefSeq Acc Id: NM_012751   ⟹   NP_036883
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21054,666,015 - 54,671,520 (-)NCBI
Rnor_6.01056,552,983 - 56,558,487 (-)NCBI
Rnor_5.01056,298,102 - 56,303,687 (-)NCBI
RGSC_v3.41056,786,705 - 56,792,209 (-)RGD
Celera1053,819,953 - 53,825,446 (-)RGD
Sequence:
RefSeq Acc Id: XM_006246596   ⟹   XP_006246658
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21054,666,851 - 54,671,581 (-)NCBI
Rnor_6.01056,552,921 - 56,558,562 (-)NCBI
Rnor_5.01056,298,102 - 56,303,687 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_036883   ⟸   NM_012751
- UniProtKB: P19357 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006246658   ⟸   XM_006246596
- Peptide Label: isoform X1
- UniProtKB: P19357 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000023256   ⟸   ENSRNOT00000023256
RefSeq Acc Id: ENSRNOP00000090027   ⟸   ENSRNOT00000095666
RefSeq Acc Id: ENSRNOP00000094954   ⟸   ENSRNOT00000113573

Transcriptome

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

Promoters
RGD ID:13697339
Promoter ID:EPDNEW_R7864
Type:multiple initiation site
Name:Slc2a4_1
Description:solute carrier family 2 member 4
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_6.01056,558,519 - 56,558,579EPDNEW

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)
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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
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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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)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: 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)
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/OlalpcvMcwi (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
SHRSP/A3NCrl (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
SHRSP/Gcrc (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
SR/JrHsd (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WAG/RijCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (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/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
WKY/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
WKY/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
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)
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
WN/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
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:2711 AgrOrtholog
Ensembl Genes ENSRNOG00000017226 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000023256 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000023256 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7192278 IMAGE-MGC_LOAD
InterPro Glc_transpt_4 UniProtKB/Swiss-Prot
  MFS_dom UniProtKB/Swiss-Prot
  MFS_sugar_transport-like UniProtKB/Swiss-Prot
  MFS_trans_sf UniProtKB/Swiss-Prot
  Sugar/inositol_transpt UniProtKB/Swiss-Prot
  Sugar_transporter_CS UniProtKB/Swiss-Prot
KEGG Report rno:25139 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93607 IMAGE-MGC_LOAD
NCBI Gene 25139 ENTREZGENE
Pfam Sugar_tr UniProtKB/Swiss-Prot
PhenoGen Slc2a4 PhenoGen
PRINTS GLUCTRSPORT4 UniProtKB/Swiss-Prot
  SUGRTRNSPORT UniProtKB/Swiss-Prot
PROSITE MFS UniProtKB/Swiss-Prot
  SUGAR_TRANSPORT_1 UniProtKB/Swiss-Prot
  SUGAR_TRANSPORT_2 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF103473 UniProtKB/Swiss-Prot
TIGR TC205760
TIGRFAMs TIGR00879 UniProtKB/Swiss-Prot
UniProt GLUT4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary P97900 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-24 Slc2a4  solute carrier family 2 member 4  Slc2a4  solute carrier family 2 (facilitated glucose transporter), member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Slc2a4  solute carrier family 2 (facilitated glucose transporter), member 4    solute carrier family 2 , member 4  Name updated 1299863 APPROVED
2002-11-06 Slc2a4  solute carrier family 2 , member 4  Glut4  Glucose transporter 4, insuline-responsive  Symbol and Name updated 625702 APPROVED
2002-06-10 Glut4  Glucose transporter 4, insuline-responsive      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_regulation Glut4 intracellular trafficking and localization is regulated by insulin 727471