Gk (glycerol kinase) - Rat Genome Database
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Gene: Gk (glycerol kinase) Rattus norvegicus
Analyze
Symbol: Gk
Name: glycerol kinase
RGD ID: 70893
Description: Exhibits histone binding activity. Involved in response to cold; response to drug; and response to ethanol. Localizes to mitochondrion and nucleus. Used to study familial hypercholesterolemia. Human ortholog(s) of this gene implicated in glycerol kinase deficiency. Orthologous to human GK (glycerol kinase); PARTICIPATES IN D-glycericacidemia pathway; familial lipoprotein lipase deficiency pathway; glycerol kinase deficiency pathway; INTERACTS WITH (R)-noradrenaline; 1-naphthyl isothiocyanate; 2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: ASTP; ATP-stimulated glucocorticoid-receptor translocation promoter; ATP-stimulated glucocorticoid-receptor translocaton promoter; ATP:glycerol 3-phosphotransferase; glycerokinase; Gyk
Orthologs:
Homo sapiens (human) : GK (glycerol kinase)  HGNC  Alliance
Mus musculus (house mouse) : Gk (glycerol kinase)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Gk (glycerol kinase)
Pan paniscus (bonobo/pygmy chimpanzee) : GK (glycerol kinase)
Canis lupus familiaris (dog) : GK (glycerol kinase)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Gk (glycerol kinase)
Sus scrofa (pig) : GK (glycerol kinase)
Chlorocebus sabaeus (African green monkey) : GK (glycerol kinase)
Heterocephalus glaber (naked mole-rat) : Gk (glycerol kinase)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0X54,227,291 - 54,303,897 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX54,227,397 - 54,303,864 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X54,426,876 - 54,503,386 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X72,416,872 - 72,493,296 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X72,491,081 - 72,566,588 (-)NCBI
CeleraX50,789,241 - 50,865,448 (-)NCBICelera
Cytogenetic MapXq21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(R)-noradrenaline  (EXP)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
8-Br-cAMP  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
alachlor  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
cadmium atom  (ISO)
carbon nanotube  (ISO)
chloroacetic acid  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
ciglitazone  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clorgyline  (ISO)
cobalt dichloride  (EXP)
copper(II) sulfate  (ISO)
coumarin  (EXP)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
dobutamine  (EXP)
dorsomorphin  (ISO)
fenofibrate  (ISO)
finasteride  (EXP)
flavonoids  (EXP)
flutamide  (EXP)
folic acid  (ISO)
glafenine  (EXP)
glycerol  (EXP,ISO)
glycerol 1-phosphate  (EXP)
hydroquinone  (ISO)
indometacin  (ISO)
irinotecan  (ISO)
isoprenaline  (EXP)
isotretinoin  (ISO)
L-methionine  (ISO)
lead diacetate  (EXP)
lovastatin  (ISO)
malathion  (EXP)
methapyrilene  (EXP,ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
monosodium L-glutamate  (ISO)
N-acetyl-L-cysteine  (EXP)
N-nitrosodiethylamine  (ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
nimesulide  (EXP)
obeticholic acid  (ISO)
ochratoxin A  (EXP)
paracetamol  (EXP,ISO)
perfluorododecanoic acid  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
phenformin  (EXP)
phenobarbital  (ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
propamocarb  (ISO)
propranolol  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium dichromate  (EXP)
sodium fluoride  (ISO)
streptozocin  (EXP)
sulindac sulfide  (ISO)
Tesaglitazar  (EXP)
tetrachloromethane  (EXP)
titanium dioxide  (EXP)
tributylstannane  (ISO)
trichloroethene  (ISO)
trichostatin A  (ISO)
troglitazone  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)
zoledronic acid  (ISO)


Cellular Component
cytosol  (ISO)
mitochondrial outer membrane  (IEA)
mitochondrion  (IBA,IDA,ISO)
nucleus  (IDA,ISO)

Molecular Function

References

Additional References at PubMed
PMID:8499898   PMID:8651297   PMID:8884278   PMID:9302256   PMID:14651853   PMID:15845384   PMID:16105550   PMID:18614015   PMID:19056867   PMID:20399282   PMID:21536471   PMID:22871113  
PMID:23376485   PMID:29960856  


Genomics

Comparative Map Data
Gk
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0X54,227,291 - 54,303,897 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX54,227,397 - 54,303,864 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X54,426,876 - 54,503,386 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X72,416,872 - 72,493,296 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X72,491,081 - 72,566,588 (-)NCBI
CeleraX50,789,241 - 50,865,448 (-)NCBICelera
Cytogenetic MapXq21NCBI
GK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX30,653,359 - 30,731,456 (+)EnsemblGRCh38hg38GRCh38
GRCh38X30,653,348 - 30,731,462 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X30,671,476 - 30,749,579 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X30,581,461 - 30,658,646 (+)NCBINCBI36hg18NCBI36
Build 34X30,431,196 - 30,508,381NCBI
CeleraX34,794,970 - 34,872,746 (+)NCBI
Cytogenetic MapXp21.2NCBI
HuRefX28,409,908 - 28,487,802 (+)NCBIHuRef
CHM1_1X30,702,368 - 30,780,409 (+)NCBICHM1_1
Gk
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X84,745,543 - 84,820,425 (-)NCBI
GRCm38X85,701,937 - 85,776,819 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX85,701,937 - 85,776,819 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X82,947,276 - 83,022,158 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X81,954,656 - 82,029,402 (-)NCBImm8
CeleraX76,897,628 - 76,973,181 (-)NCBICelera
Cytogenetic MapXC1NCBI
cM MapX39.32NCBI
Gk
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955531106,761 - 183,347 (-)NCBIChiLan1.0ChiLan1.0
GK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X30,806,950 - 30,876,075 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX30,806,950 - 30,877,131 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X23,250,290 - 23,327,373 (+)NCBI
GK
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X25,748,060 - 25,834,462 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Gk
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365536,707,148 - 6,787,245 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1X26,470,422 - 26,558,892 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X28,788,865 - 28,872,354 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GK
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 EnsemblX29,043,571 - 29,118,646 (+)Ensembl
ChlSab1.1X29,043,390 - 29,119,516 (+)NCBI
Gk
(Heterocephalus glaber - naked mole-rat)
No map positions available.

Position Markers
AA945076  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0X54,227,492 - 54,227,685NCBIRnor6.0
Rnor_5.0X54,426,978 - 54,427,171UniSTSRnor5.0
RGSC_v3.4X72,416,967 - 72,417,160UniSTSRGSC3.4
CeleraX50,789,336 - 50,789,529UniSTS
Cytogenetic MapXq22UniSTS
RH 3.4 MapX662.32UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X15688119127888215Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1815335263153352Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X44320616158345622Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX44557974120045269Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1133
Count of miRNA genes:322
Interacting mature miRNAs:437
Transcripts:ENSRNOT00000051249, ENSRNOT00000064340
Prediction methods:Microtar, Miranda, Pita, 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 43 29 8 29 51 35 21 11
Low 3 43 14 12 11 12 8 10 23 17 8
Below cutoff 1 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000051249   ⟹   ENSRNOP00000048795
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX54,228,315 - 54,303,825 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000064340   ⟹   ENSRNOP00000059825
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX54,227,397 - 54,303,825 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087547   ⟹   ENSRNOP00000074103
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX54,227,399 - 54,303,864 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087919   ⟹   ENSRNOP00000075227
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX54,233,646 - 54,303,729 (-)Ensembl
RefSeq Acc Id: NM_024381   ⟹   NP_077357
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X54,227,397 - 54,303,825 (-)NCBI
Rnor_5.0X54,426,876 - 54,503,386 (-)NCBI
RGSC_v3.4X72,416,872 - 72,493,296 (-)RGD
CeleraX50,789,241 - 50,865,448 (-)RGD
Sequence:
RefSeq Acc Id: XM_006256987   ⟹   XP_006257049
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X54,227,390 - 54,303,896 (-)NCBI
Rnor_5.0X54,426,876 - 54,503,386 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006256988   ⟹   XP_006257050
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X54,227,390 - 54,303,895 (-)NCBI
Rnor_5.0X54,426,876 - 54,503,386 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773274   ⟹   XP_008771496
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X54,227,390 - 54,303,897 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773275   ⟹   XP_008771497
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X54,227,390 - 54,303,896 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773276   ⟹   XP_008771498
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X54,227,291 - 54,303,896 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773278   ⟹   XP_008771500
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X54,227,390 - 54,303,896 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_077357   ⟸   NM_024381
- UniProtKB: Q63060 (UniProtKB/Swiss-Prot),   D3ZCI0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257049   ⟸   XM_006256987
- Peptide Label: isoform X4
- UniProtKB: A0A0G2K785 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257050   ⟸   XM_006256988
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_008771498   ⟸   XM_008773276
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008771497   ⟸   XM_008773275
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008771496   ⟸   XM_008773274
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008771500   ⟸   XM_008773278
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: ENSRNOP00000074103   ⟸   ENSRNOT00000087547
RefSeq Acc Id: ENSRNOP00000075227   ⟸   ENSRNOT00000087919
RefSeq Acc Id: ENSRNOP00000048795   ⟸   ENSRNOT00000051249
RefSeq Acc Id: ENSRNOP00000059825   ⟸   ENSRNOT00000064340
Protein Domains
FGGY_C   FGGY_N

Transcriptome

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

Promoters
RGD ID:13701836
Promoter ID:EPDNEW_R12356
Type:multiple initiation site
Name:Gk_1
Description:glycerol kinase
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_6.0X54,303,843 - 54,303,903EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
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 (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/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 (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)
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
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
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/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
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 (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
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
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
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
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
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 (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
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
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 (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 (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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 (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 (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
X 54494111 54494112 C T snv ACI/EurMcwi (MCW), SBN/Ygl (MCW), ACI/N (KNAW), ACI/EurMcwi (KNAW), DA/BklArbNsi (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), SBN/Ygl (KNAW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
X 54293963 54293964 G A snv CDR, SS/JrHsdMcwi (MCW), SBH/Ygl (MCW), SBN/Ygl (MCW), FHL/EurMcwi (MCW)
X 54293992 54293993 G A snv FHL/EurMcwi (MCW), SBH/Ygl (MCW), CDR, SS/JrHsdMcwi (MCW), SBN/Ygl (MCW)
X 54293996 54293997 C A snv SBN/Ygl (MCW), FHL/EurMcwi (MCW), SBH/Ygl (MCW), CDR, SS/JrHsdMcwi (MCW)
X 54294032 54294033 T C snv FHL/EurMcwi (MCW), SBH/Ygl (MCW), SS/JrHsdMcwi (MCW)
X 54294625 54294626 C T snv SBN/Ygl (MCW), ACI/EurMcwi (RGD), CDS, SBN/Ygl (RGD), WKY/Gcrc (RGD), WKY/NCrl (RGD), CDR, WKY/N (MCW), ACI/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70893 AgrOrtholog
Ensembl Genes ENSRNOG00000034116 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000048795 UniProtKB/TrEMBL
  ENSRNOP00000059825 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000074103 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075227 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051249 UniProtKB/TrEMBL
  ENSRNOT00000064340 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000087547 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000087919 ENTREZGENE, UniProtKB/TrEMBL
InterPro ATPase_NBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Carb_kinase_FGGY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Carb_kinase_FGGY_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Carb_kinase_FGGY_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Carb_kinase_FGGY_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GK1-3_metazoa UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glycerol_kin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:79223 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 79223 ENTREZGENE
Pfam FGGY_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FGGY_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Gk PhenoGen
PIRSF GlpK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE FGGY_KINASES_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FGGY_KINASES_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53067 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs glycerol_kin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Rn.225941 ENTREZGENE
UniProt A0A0G2K785 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2KA23_RAT UniProtKB/TrEMBL
  D3ZCI0 ENTREZGENE, UniProtKB/TrEMBL
  GLPK_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary F1LSY6 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-23 Gk  glycerol kinase  Gyk  glycerol kinase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-07-09 Gyk  glycerol kinase      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_homology middle portion of the amino acid sequence has 48% homology to E. coli glycerol kinase 70643
 



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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.