Gck (glucokinase) - Rat Genome Database

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Gene: Gck (glucokinase) Rattus norvegicus
Analyze
Symbol: Gck
Name: glucokinase
RGD ID: 2670
Description: Enables several functions, including adenyl ribonucleotide binding activity; glucose binding activity; and hexokinase activity. Involved in several processes, including cellular chemical homeostasis; cellular response to hormone stimulus; and hexose metabolic process. Located in several cellular components, including basal cortex; nucleoplasm; and secretory granule. Colocalizes with actin filament. Used to study fatty liver disease; obesity; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in artery disease (multiple); familial hyperinsulinemic hypoglycemia 3; and glucose metabolism disease (multiple). Orthologous to human GCK (glucokinase); PARTICIPATES IN glycogen biosynthetic pathway; glycogen metabolic pathway; glycolysis pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: GLK; glucokinase variant 3; GLUKA; hexokinase type IV; hexokinase-4; hexokinase-D; HK IV; HK4; RNGK2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: QTLs:   Pancm5   Niddm37  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21480,785,060 - 80,829,842 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1480,785,060 - 80,826,995 (-)Ensembl
Rnor_6.01486,149,146 - 86,191,589 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1486,148,928 - 86,190,659 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01486,832,735 - 86,875,295 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41486,572,518 - 86,587,723 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11486,591,662 - 86,606,868 (-)NCBI
Celera1479,669,432 - 79,710,739 (-)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
1-methylphenanthrene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP)
1H-pyrazole  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4,6-trinitrotoluene  (EXP)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-amino-2-deoxy-D-glucopyranose  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxamide  (ISO)
6-propyl-2-thiouracil  (EXP)
8-Br-cAMP  (ISO)
9-cis-retinoic acid  (EXP,ISO)
aconitine  (EXP)
acrylamide  (EXP)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucosamine  (EXP)
aldehydo-D-glucose  (EXP,ISO)
alloxan  (EXP,ISO)
ammonium chloride  (EXP)
anthracen-2-amine  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atorvastatin calcium  (EXP,ISO)
benzamide  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
beta-D-glucosamine  (EXP)
beta-naphthoflavone  (EXP)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
boric acid  (ISO)
carbon nanotube  (ISO)
chloroform  (EXP)
chlorothalonil  (ISO)
choline  (ISO)
ciguatoxin CTX1B  (ISO)
clofibrate  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
Cuprizon  (EXP)
cyanocob(III)alamin  (ISO)
cyclosporin A  (ISO)
D-glucose  (EXP,ISO)
desferrioxamine B  (EXP)
dexamethasone  (EXP)
diarsenic trioxide  (ISO)
dibenz[a,h]anthracene  (ISO)
dibenzo[a,l]pyrene  (ISO)
dichlorvos  (EXP)
diclofenac  (ISO)
diethylstilbestrol  (EXP)
dioxygen  (ISO)
duvoglustat  (ISO)
ebselen  (ISO)
erythromycin estolate  (EXP)
ethanol  (ISO)
fluoranthene  (ISO)
folic acid  (ISO)
fructose  (EXP)
furan  (EXP)
gamma-hexachlorocyclohexane  (EXP)
Ginsenoside Rh4  (EXP,ISO)
glafenine  (EXP)
glucose  (EXP,ISO)
glycine betaine  (ISO)
hesperidin  (ISO)
hydrazine  (EXP)
L-methionine  (ISO)
metformin  (EXP,ISO)
methylmercury chloride  (ISO)
microcystin-LR  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monocrotophos  (EXP)
N-[3,5-bis(trifluoromethyl)phenyl]-5-chloro-2-hydroxybenzamide  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
naringin  (ISO)
nefazodone  (EXP)
Nonylphenol  (EXP)
ozone  (EXP)
paracetamol  (ISO)
penconazole  (ISO)
perfluorononanoic acid  (EXP)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
phenformin  (EXP)
phenobarbital  (EXP)
pirinixic acid  (ISO)
pravastatin  (EXP)
pregnenolone 16alpha-carbonitrile  (EXP)
procymidone  (ISO)
resveratrol  (EXP,ISO)
rifampicin  (ISO)
rotenone  (EXP)
selenomethionine  (ISO)
sevoflurane  (EXP)
sodium arsenite  (ISO)
streptozocin  (EXP,ISO)
styrene  (EXP)
tamoxifen  (ISO)
taurine  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
theophylline  (EXP)
thioacetamide  (EXP)
Triptolide  (EXP)
triptonide  (ISO)
valproic acid  (ISO)
vanillic acid  (ISO)
WIN 55212-2  (ISO)
zaragozic acid A  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
actin filament  (IDA)
basal cortex  (IDA)
cell cortex  (IDA)
cytoplasm  (IDA)
cytosol  (IBA,IDA,IEA,ISO)
mitochondrion  (IBA,IDA,IEA,ISO)
nucleoplasm  (IDA)
nucleus  (IDA,IEA,ISO)
secretory granule  (IDA)

Molecular Function
ADP binding  (IDA)
ATP binding  (IDA,IEA,ISO,ISS)
fructokinase activity  (IBA,IDA)
glucokinase activity  (IBA,IDA,IEA,ISO,ISS)
glucose binding  (IDA,IEA,IPI,ISO,ISS)
hexokinase activity  (ISO)
magnesium ion binding  (IDA)
mannokinase activity  (IBA,IDA)
protein binding  (IPI,ISO)
protein phosphatase binding  (IPI)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Andreone TL, etal., J Biol Chem 1989 Jan 5;264(1):363-9.
2. Arden C, etal., FEBS Lett. 2006 Apr 3;580(8):2065-70. Epub 2006 Mar 10.
3. Baltrusch S, etal., Diabetes. 2005 Oct;54(10):2829-37.
4. Brocklehurst KJ, etal., Biochem J. 2004 Mar 1;378(Pt 2):693-7.
5. Cardenas ML, etal., Biochim Biophys Acta. 1998 Mar 5;1401(3):242-64.
6. Chiang FT, etal., Am J Hypertens. 1997 Sep;10(9 Pt 1):1049-52.
7. Cárdenas ML, etal., Biochem J. 1984 Sep 1;222(2):363-70. doi: 10.1042/bj2220363.
8. De Ceuninck F, etal., Br J Pharmacol. 2013 Jan;168(2):339-53. doi: 10.1111/j.1476-5381.2012.02184.x.
9. Dunn-Meynell AA, etal., Diabetes 2002 Jul;51(7):2056-65.
10. Eiki J, etal., Mol Pharmacol. 2011 Dec;80(6):1156-65. doi: 10.1124/mol.111.074401. Epub 2011 Sep 21.
11. Fernandez-Mejia C, etal., Endocrinology 2001 Apr;142(4):1448-52.
12. Fujimoto Y, etal., Am J Physiol Endocrinol Metab. 2004 Sep;287(3):E414-23. Epub 2004 May 11.
13. Futamura M, etal., Diabetologia. 2012 Apr;55(4):1071-80. doi: 10.1007/s00125-011-2439-3. Epub 2012 Jan 11.
14. Futamura M, etal., J Biol Chem. 2006 Oct 6;.
15. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
16. Glaser B, etal., N Engl J Med. 1998 Jan 22;338(4):226-30.
17. GOA data from the GO Consortium
18. Gunn JM and Taylor CB, Biochem J. 1973 Nov;136(3):455-65.
19. Hayzer DJ and Iynedjian PB, Biochem J 1990 Aug 15;270(1):261-3.
20. Jetton TL, etal., Int J Exp Diabetes Res. 2001;2(3):173-86.
21. Jiang M, etal., Endocrinology. 2011 Apr;152(4):1284-9. doi: 10.1210/en.2010-1162. Epub 2011 Jan 14.
22. Johnson D, etal., Diabetes. 2007 Jun;56(6):1694-702. Epub 2007 Mar 14.
23. Jorns A, etal., Virchows Arch. 1999 Jan;434(1):75-82.
24. Kang L, etal., Diabetes. 2006 Feb;55(2):412-20.
25. KEGG
26. Levin BE, etal., Diabetes. 2008 May;57(5):1371-9. Epub 2008 Feb 21.
27. Li X, etal., Biochimie. 2012 Dec;94(12):2620-7. doi: 10.1016/j.biochi.2012.07.019. Epub 2012 Aug 1.
28. Magnuson MA and Shelton KD, J Biol Chem 1989 Sep 25;264(27):15936-42.
29. Maiztegui B, etal., J Endocrinol. 2009 Feb;200(2):139-49. doi: 10.1677/JOE-08-0386. Epub 2008 Nov 27.
30. Marz W, etal., Circulation. 2004 Jun 15;109(23):2844-9. Epub 2004 Jun 1.
31. MGD data from the GO Consortium
32. Monasterio O and Cardenas ML, Biochem J. 2003 Apr 1;371(Pt 1):29-38.
33. Munoz-Alonso MJ, etal., J Biol Chem 2000 Oct 20;275(42):32406-12.
34. Murata T, etal., FEBS Lett. 1997 Apr 7;406(1-2):109-13.
35. NCBI rat LocusLink and RefSeq merged data July 26, 2002
36. Nishi S, etal., Diabet Med. 1994 Mar;11(2):193-7.
37. Njolstad PR, etal., N Engl J Med. 2001 May 24;344(21):1588-92.
38. Noda K, etal., Diabetes. 1993 Aug;42(8):1147-52.
39. Nolan CJ and Prentki M, Trends Endocrinol Metab. 2008 Oct;19(8):285-91. Epub 2008 Sep 6.
40. O'Doherty RM, etal., Diabetes. 1999 Oct;48(10):2022-7.
41. OMIM Disease Annotation Pipeline
42. Online Mendelian Inheritance in Man, OMIM (TM).
43. Payne VA, etal., Am J Physiol Regul Integr Comp Physiol. 2007 Aug;293(2):R618-25. Epub 2007 Jun 6.
44. Pipeline to import KEGG annotations from KEGG into RGD
45. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
46. Pipeline to import SMPDB annotations from SMPDB into RGD
47. RGD automated data pipeline
48. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
49. RGD automated import pipeline for gene-chemical interactions
50. Roncero I, etal., J Neuroendocrinol. 2009 Dec;21(12):973-81. doi: 10.1111/j.1365-2826.2009.01919.x. Epub 2009 Oct 6.
51. Sanz C, etal., J Endocrinol. 2007 May;193(2):259-67.
52. Shaat N, etal., Diabetologia. 2006 Jul;49(7):1545-51. Epub 2006 Apr 26.
53. Shiota C, etal., J Biol Chem. 1999 Dec 24;274(52):37125-30.
54. Stoffel M, etal., Diabetes. 1993 Jun;42(6):937-40.
55. Tanizawa Y, etal., Diabetologia. 1993 May;36(5):409-13.
56. Toyoda Y, etal., FEBS Lett. 1997 Oct 6;415(3):281-4.
57. Toyoda Y, etal., Histochem Cell Biol. 1999 Jul;112(1):35-40.
58. Veiga-da-Cunha M and Van Schaftingen E, J Biol Chem 2002 Mar 8;277(10):8466-73. Epub 2001 Dec 27.
59. Vionnet N, etal., Nature. 1992 Apr 23;356(6371):721-2.
60. Wimhurst JM and Manchester KL, Biochem J. 1973 May;134(1):143-56.
61. Xu LZ, etal., Biochemistry. 1995 May 9;34(18):6083-92. doi: 10.1021/bi00018a011.
62. Zahner D and Malaisse WJ, Diabetes Res. 1990 Jul;14(3):101-8.
Additional References at PubMed
PMID:141272   PMID:1999433   PMID:2590200   PMID:2662183   PMID:3931624   PMID:7510884   PMID:7553875   PMID:7556622   PMID:7665557   PMID:8132752   PMID:8446612   PMID:8530440  
PMID:8878425   PMID:8954920   PMID:9357804   PMID:9662046   PMID:9867845   PMID:9873043   PMID:10713097   PMID:11042116   PMID:11950391   PMID:12031952   PMID:12242462   PMID:12519761  
PMID:12931191   PMID:12941786   PMID:14505487   PMID:14651853   PMID:14674713   PMID:14706571   PMID:14749268   PMID:15111491   PMID:15123649   PMID:15479952   PMID:15707679   PMID:15983194  
PMID:16173921   PMID:16834571   PMID:17204595   PMID:17317782   PMID:17414058   PMID:17415548   PMID:17712721   PMID:17889836   PMID:17994217   PMID:18039179   PMID:18084728   PMID:18165236  
PMID:18199594   PMID:18322640   PMID:18477811   PMID:18496667   PMID:18612599   PMID:18812575   PMID:19146401   PMID:19173678   PMID:19366697   PMID:19560332   PMID:19604517   PMID:20401447  
PMID:20531973   PMID:20668700   PMID:21488089   PMID:22044397   PMID:22611063   PMID:22698525   PMID:22778220   PMID:23085254   PMID:24187134   PMID:24772484   PMID:24793715   PMID:25074928  
PMID:25485685   PMID:25906449   PMID:30146176   PMID:32188779  


Genomics

Candidate Gene Status
Gck is a candidate Gene for QTL Niddm37
Comparative Map Data
Gck
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21480,785,060 - 80,829,842 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1480,785,060 - 80,826,995 (-)Ensembl
Rnor_6.01486,149,146 - 86,191,589 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1486,148,928 - 86,190,659 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01486,832,735 - 86,875,295 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41486,572,518 - 86,587,723 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11486,591,662 - 86,606,868 (-)NCBI
Celera1479,669,432 - 79,710,739 (-)NCBICelera
Cytogenetic Map14q21NCBI
GCK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl744,143,213 - 44,198,170 (-)EnsemblGRCh38hg38GRCh38
GRCh38744,143,213 - 44,189,439 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37744,182,812 - 44,229,038 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36744,150,395 - 44,195,563 (-)NCBINCBI36hg18NCBI36
Build 34743,957,109 - 43,972,127NCBI
Celera744,281,829 - 44,326,987 (-)NCBI
Cytogenetic Map7p13NCBI
HuRef744,069,141 - 44,114,301 (-)NCBIHuRef
CHM1_1744,187,724 - 44,232,886 (-)NCBICHM1_1
CRA_TCAGchr7v2744,223,370 - 44,268,527 (-)NCBI
Gck
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39115,850,816 - 5,900,081 (-)NCBIGRCm39mm39
GRCm39 Ensembl115,850,820 - 5,900,081 (-)Ensembl
GRCm38115,900,816 - 5,950,081 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl115,900,820 - 5,950,081 (-)EnsemblGRCm38mm10GRCm38
MGSCv37115,800,826 - 5,849,602 (-)NCBIGRCm37mm9NCBIm37
MGSCv36115,800,826 - 5,849,602 (-)NCBImm8
Celera116,392,658 - 6,441,626 (-)NCBICelera
Cytogenetic Map11A1NCBI
cM Map113.88NCBI
Gck
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554567,783,760 - 7,842,129 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554567,784,269 - 7,838,260 (+)NCBIChiLan1.0ChiLan1.0
GCK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1744,924,922 - 44,971,365 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl744,926,848 - 44,937,751 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0744,857,604 - 44,903,683 (-)NCBIMhudiblu_PPA_v0panPan3
GCK
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha162,080,944 - 2,123,987 (-)NCBI
ROS_Cfam_1.01614,737,904 - 14,781,009 (+)NCBI
UNSW_CanFamBas_1.01614,369,169 - 14,412,232 (+)NCBI
UU_Cfam_GSD_1.01614,349,631 - 14,392,705 (+)NCBI
Gck
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511899,892,708 - 99,947,669 (-)NCBI
SpeTri2.0NW_00493647819,104,477 - 19,118,915 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GCK
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12114,475,723 - 14,523,086 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2114,507,902 - 14,523,850 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660627,992,041 - 8,048,141 (-)NCBIVero_WHO_p1.0
Gck
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247407,844,496 - 7,885,900 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D14Arb12   No map positions available.
RH94778  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21480,785,215 - 80,785,414 (+)MAPPERmRatBN7.2
Rnor_6.01486,149,302 - 86,149,500NCBIRnor6.0
Rnor_5.01486,833,120 - 86,833,318UniSTSRnor5.0
RGSC_v3.41486,572,674 - 86,572,872UniSTSRGSC3.4
Celera1479,669,588 - 79,669,786UniSTS
Cytogenetic Map14q21UniSTS
PMC133987P3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21480,800,288 - 80,800,545 (+)MAPPERmRatBN7.2
Rnor_6.01486,164,371 - 86,164,627NCBIRnor6.0
Rnor_5.01486,848,747 - 86,849,003UniSTSRnor5.0
RGSC_v3.41486,587,743 - 86,587,999UniSTSRGSC3.4
Celera1479,684,656 - 79,684,912UniSTS
Cytogenetic Map14q21UniSTS
RH94415  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21480,785,080 - 80,785,259 (+)MAPPERmRatBN7.2
Rnor_6.01486,149,167 - 86,149,345NCBIRnor6.0
Rnor_5.01486,832,985 - 86,833,163UniSTSRnor5.0
RGSC_v3.41486,572,539 - 86,572,717UniSTSRGSC3.4
Celera1479,669,453 - 79,669,631UniSTS
Cytogenetic Map14q21UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143766971982669719Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143766971982669719Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143905723783368335Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)146875779683368335Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1470053989104886043Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)147341532392554092Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532392554092Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532392554092Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)147341532392554092Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532395876975Rat
631213Bw60Body weight QTL604.51retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)147995092195876975Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:389
Count of miRNA genes:208
Interacting mature miRNAs:244
Transcripts:ENSRNOT00000019625
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 12 12 12
Low 20 7 7 7 44 8 12 7
Below cutoff 3 23 30 20 2 20 2 2 30 13 22 4 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001270849 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001270850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_012565 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251179 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091619 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091620 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC110110 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HB877580 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HC934989 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J04218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KJ026953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M25806 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M25807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M30770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M58759 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X53588 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X53589 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X53590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X94615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000080147   ⟹   ENSRNOP00000068656
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1480,785,060 - 80,800,286 (-)Ensembl
Rnor_6.0 Ensembl1486,149,146 - 86,164,368 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086343   ⟹   ENSRNOP00000071435
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1480,785,060 - 80,800,286 (-)Ensembl
Rnor_6.0 Ensembl1486,148,928 - 86,164,341 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086474   ⟹   ENSRNOP00000069954
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1480,785,060 - 80,826,995 (-)Ensembl
Rnor_6.0 Ensembl1486,149,146 - 86,190,659 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103985   ⟹   ENSRNOP00000079626
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1480,785,060 - 80,796,376 (-)Ensembl
RefSeq Acc Id: NM_001270849   ⟹   NP_001257778
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21480,785,060 - 80,800,286 (-)NCBI
Rnor_6.01486,149,146 - 86,164,368 (-)NCBI
Rnor_5.01486,832,735 - 86,875,295 (-)NCBI
Celera1479,669,432 - 79,684,653 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001270850   ⟹   NP_001257779
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21480,785,060 - 80,826,995 (-)NCBI
Rnor_6.01486,149,146 - 86,190,659 (-)NCBI
Rnor_5.01486,832,735 - 86,875,295 (-)NCBI
Celera1479,669,432 - 79,710,739 (-)NCBI
Sequence:
RefSeq Acc Id: NM_012565   ⟹   NP_036697
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21480,785,060 - 80,800,286 (-)NCBI
Rnor_6.01486,149,146 - 86,164,368 (-)NCBI
Rnor_5.01486,832,735 - 86,875,295 (-)NCBI
RGSC_v3.41486,572,518 - 86,587,723 (-)RGD
Celera1479,669,432 - 79,684,653 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251179   ⟹   XP_006251241
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21480,785,897 - 80,829,842 (-)NCBI
Rnor_6.01486,149,151 - 86,191,589 (-)NCBI
Rnor_5.01486,832,735 - 86,875,295 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039091619   ⟹   XP_038947547
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21480,785,897 - 80,795,924 (-)NCBI
RefSeq Acc Id: XM_039091620   ⟹   XP_038947548
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21480,785,897 - 80,800,274 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_036697   ⟸   NM_012565
- Peptide Label: isoform 2
- UniProtKB: P17712 (UniProtKB/Swiss-Prot),   Q64596 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257779   ⟸   NM_001270850
- Peptide Label: isoform 3
- UniProtKB: P17712 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001257778   ⟸   NM_001270849
- Peptide Label: isoform 1
- UniProtKB: Q64596 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251241   ⟸   XM_006251179
- Peptide Label: isoform X1
- UniProtKB: P17712 (UniProtKB/Swiss-Prot),   X2G6B3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000068656   ⟸   ENSRNOT00000080147
RefSeq Acc Id: ENSRNOP00000069954   ⟸   ENSRNOT00000086474
RefSeq Acc Id: ENSRNOP00000071435   ⟸   ENSRNOT00000086343
RefSeq Acc Id: XP_038947548   ⟸   XM_039091620
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038947547   ⟸   XM_039091619
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000079626   ⟸   ENSRNOT00000103985
Protein Domains
Hexokinase   Hexokinase_1   Hexokinase_2

Transcriptome

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

Promoters
RGD ID:13699466
Promoter ID:EPDNEW_R9990
Type:initiation region
Name:Gck_1
Description:glucokinase
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_6.01486,164,387 - 86,164,447EPDNEW

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)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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)
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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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
14 86153036 86153037 C T snv CDR, CDS
14 86153069 86153070 A T snv CDR, CDS


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2670 AgrOrtholog
Ensembl Genes ENSRNOG00000061527 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000068656 UniProtKB/TrEMBL
  ENSRNOP00000069954 UniProtKB/Swiss-Prot
  ENSRNOP00000071435 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000080147 UniProtKB/TrEMBL
  ENSRNOT00000086343 UniProtKB/Swiss-Prot
  ENSRNOT00000086474 UniProtKB/Swiss-Prot
InterPro ATPase_NBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GCK_chordate UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Hexokinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Hexokinase_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Hexokinase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Hexokinase_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24385 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 24385 ENTREZGENE
PANTHER PTHR19443 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR19443:SF3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Hexokinase_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Hexokinase_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB GCK RGD
PhenoGen Gck PhenoGen
PROSITE HEXOKINASE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HEXOKINASE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53067 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt HXK4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q64596 ENTREZGENE, UniProtKB/TrEMBL
  X2G6B3 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary P17711 UniProtKB/Swiss-Prot
  Q63219 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Gck  Glucokinase      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease mutations in humans cause maturity-onset diabetes of the youth or hyperinsulinemia 628440
gene_expression expressed in hepatocytes, pancreatic beta-cells, and neuroendocrine cells of the brain and gut 628440
gene_process mediates glucose homeostasis and insulin secretion in response to glucose in the beta-cells; controls glucose uptake in the liver 628440
gene_regulation mRNA level is decreased by glucagon through increases on cAMP 628440
gene_regulation in the liver, insulin and glucagon mediate the activity at the level of gene transcription in response to fasting and refeeding; in pancreatic beta-cells, glucose levels modulate the activity 628440
gene_regulation cAMP represses gene expression in the liver but increases the mRNA level in pancreatic beta-cells 628440
gene_transcript contains two distinct promoters for a tissue-specific control of the expression 628440