Chka (choline kinase alpha) - Rat Genome Database

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Gene: Chka (choline kinase alpha) Rattus norvegicus
Analyze
Symbol: Chka
Name: choline kinase alpha
RGD ID: 61944
Description: Enables ATP binding activity; choline binding activity; and phosphotransferase activity, alcohol group as acceptor. Involved in several processes, including choline metabolic process; ethanolamine metabolic process; and response to 3-methylcholanthrene. Predicted to be located in lipid droplet. Predicted to be active in cytosol. Biomarker of colon cancer and transient cerebral ischemia. Orthologous to human CHKA (choline kinase alpha); PARTICIPATES IN glycerophospholipid metabolic pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: CHETK-alpha; Chk; choline kinase; choline kinase R; CK; CK-R; EK; ethanolamine kinase; MGC93538
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81210,506,069 - 210,554,753 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1210,506,056 - 210,554,752 (+)EnsemblGRCr8
mRatBN7.21201,076,804 - 201,125,517 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1201,076,860 - 201,125,516 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1209,450,243 - 209,498,722 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01216,538,854 - 216,587,504 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01209,213,056 - 209,261,706 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01219,076,618 - 219,126,221 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1219,077,771 - 219,126,220 (+)Ensemblrn6Rnor6.0
Rnor_5.01225,950,340 - 225,998,826 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41206,368,963 - 206,418,526 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1198,630,045 - 198,678,068 (+)NCBICelera
RGSC_v3.11206,522,415 - 206,571,978 (+)NCBI
Cytogenetic Map1q43NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP,ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-methylcholine  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (EXP,ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-methylcholanthrene  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
acetaldehyde  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
arsenous acid  (ISO)
baicalin  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bilirubin IXalpha  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
chrysene  (ISO)
ciguatoxin CTX1B  (ISO)
clofibrate  (ISO)
cobalt dichloride  (EXP)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
cyproconazole  (ISO)
deguelin  (ISO)
deoxynivalenol  (ISO)
diarsenic trioxide  (ISO)
dibenz[a,h]anthracene  (ISO)
Dibutyl phosphate  (ISO)
diclofenac  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
fenpyroximate  (ISO)
fenthion  (ISO)
fluoranthene  (ISO)
folic acid  (ISO)
furan  (ISO)
gentamycin  (EXP)
graphene oxide  (ISO)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
indole-3-methanol  (EXP)
inulin  (ISO)
isoprenaline  (ISO)
L-methionine  (ISO)
leflunomide  (EXP,ISO)
lipopolysaccharide  (ISO)
lithocholic acid  (ISO)
menadione  (ISO)
mercury dibromide  (ISO)
mercury dichloride  (EXP,ISO)
methapyrilene  (EXP)
methidathion  (ISO)
methotrexate  (ISO)
methyl carbamate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-nitrosodiethylamine  (EXP,ISO)
nefazodone  (EXP)
nickel sulfate  (ISO)
nimesulide  (EXP)
ochratoxin A  (ISO)
okadaic acid  (ISO)
ozone  (EXP,ISO)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (ISO)
parathion  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenformin  (EXP)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
rotenone  (EXP,ISO)
SB 431542  (ISO)
selenium atom  (ISO)
sevoflurane  (EXP)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
streptozocin  (ISO)
succimer  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
tebufenpyrad  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (ISO)
tetraphene  (ISO)
thifluzamide  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
topiramate  (EXP)
tributylstannane  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (EXP,ISO)
Triptolide  (ISO)
triptonide  (ISO)
trovafloxacin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IBA)
cytosol  (IEA,ISO,ISS)
lipid droplet  (IEA,ISO,ISS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
3. Effects of cataractogenesis on the CDP-choline pathway: changes in ATP concentration and phosphocholine synthesis during and after exposure of rat lenses to sugars in vitro and in vivo. Liu Y, etal., Ophthalmic Res. 2003 Jul-Aug;35(4):185-91.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Increased choline kinase activity and elevated phosphocholine levels in human colon cancer. Nakagami K, etal., Jpn J Cancer Res. 1999 Apr;90(4):419-24.
6. Increased choline kinase activity in 1,2-dimethylhydrazine-induced rat colon cancer. Nakagami K, etal., Jpn J Cancer Res. 1999 Nov;90(11):1212-7.
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Comprehensive regional and temporal gene expression profiling of the rat brain during the first 24 h after experimental stroke identifies dynamic ischemia-induced gene expression patterns, and reveals a biphasic activation of genes in surviving tissue. Rickhag M, etal., J Neurochem. 2006 Jan;96(1):14-29. Epub 2005 Nov 21.
12. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
13. Molecular cloning, characterization, and expression in Escherichia coli of a cDNA encoding mammalian choline kinase. Uchida T and Yamashita S, J Biol Chem 1992 May 15;267(14):10156-62.
14. Regulation of choline kinase R: analyses of alternatively spliced choline kinases and the promoter region. Uchida T J Biochem (Tokyo) 1994 Sep;116(3):508-18.
Additional References at PubMed
PMID:11964179   PMID:16371353   PMID:16861741   PMID:19915674  


Genomics

Comparative Map Data
Chka
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81210,506,069 - 210,554,753 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1210,506,056 - 210,554,752 (+)EnsemblGRCr8
mRatBN7.21201,076,804 - 201,125,517 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1201,076,860 - 201,125,516 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1209,450,243 - 209,498,722 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01216,538,854 - 216,587,504 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01209,213,056 - 209,261,706 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01219,076,618 - 219,126,221 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1219,077,771 - 219,126,220 (+)Ensemblrn6Rnor6.0
Rnor_5.01225,950,340 - 225,998,826 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41206,368,963 - 206,418,526 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1198,630,045 - 198,678,068 (+)NCBICelera
RGSC_v3.11206,522,415 - 206,571,978 (+)NCBI
Cytogenetic Map1q43NCBI
CHKA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381168,052,859 - 68,121,388 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1168,052,859 - 68,121,444 (-)Ensemblhg38GRCh38
GRCh371167,820,326 - 67,888,855 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361167,576,902 - 67,645,434 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1165,154,000 - 65,222,386 (-)NCBICelera
Cytogenetic Map11q13.2NCBI
HuRef1164,155,675 - 64,231,363 (-)NCBIHuRef
CHM1_11167,704,080 - 67,773,223 (-)NCBICHM1_1
T2T-CHM13v2.01168,056,500 - 68,125,033 (-)NCBIT2T-CHM13v2.0
Chka
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39193,901,585 - 3,944,368 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl193,901,773 - 3,944,369 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38193,851,585 - 3,894,369 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl193,851,773 - 3,894,369 (+)Ensemblmm10GRCm38
MGSCv37193,851,773 - 3,894,367 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36193,851,773 - 3,894,369 (+)NCBIMGSCv36mm8
Celera193,732,122 - 3,774,742 (+)NCBICelera
Cytogenetic Map19ANCBI
cM Map193.57NCBI
Chka
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542217,710,434 - 17,766,256 (+)Ensembl
ChiLan1.0NW_00495542217,710,981 - 17,766,256 (+)NCBIChiLan1.0ChiLan1.0
CHKA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2969,003,455 - 69,071,569 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11170,046,717 - 70,114,782 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01163,134,776 - 63,202,516 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11166,443,275 - 66,486,517 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1166,444,406 - 66,510,221 (-)EnsemblpanPan2panpan1.1
CHKA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11849,717,512 - 49,784,653 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1849,745,437 - 49,781,882 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1848,326,328 - 48,395,961 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01850,633,890 - 50,707,854 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1850,633,254 - 50,704,171 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11849,851,764 - 49,917,733 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01849,426,624 - 49,492,553 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01850,219,763 - 50,289,786 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Chka
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049475,589,711 - 5,626,074 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365992,001,673 - 2,067,399 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365992,031,953 - 2,068,423 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHKA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl24,788,213 - 4,846,665 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.124,788,508 - 4,846,667 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.223,416,315 - 3,474,471 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CHKA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.116,411,606 - 6,482,508 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666038103,689,653 - 103,760,737 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chka
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476718,744,547 - 18,807,352 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462476718,744,647 - 18,807,352 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Chka
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v123,756,633 - 3,802,938 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Chka
178 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:306
Count of miRNA genes:119
Interacting mature miRNAs:131
Transcripts:ENSRNOT00000022824, ENSRNOT00000023020
Prediction methods: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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1160111531262090437Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1160573753266453731Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1207243873252243873Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1186658830266453731Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1177339686222339686Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1181059071226059071Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1181059071226059071Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1182039247227039247Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1183564652228564652Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1205233991267096252Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1205233991267096252Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1186658830266453731Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1176288899270518180Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1193964073238964073Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1160573753210707719Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1162548015270518180Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1181059071226059071Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1205233991267096252Rat
152025235Bw194Body weight QTL 1944.86body mass (VT:0001259)1132966869252856240Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1152919152268496042Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1139442053223964440Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1160573753210707719Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1181059071226059071Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1160111531262090437Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1181059071226059071Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1194575422239575422Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)199645382221502378Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1168063662213063662Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1193400541238400541Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1200449456256003563Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1182535316227535316Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1146080545243492863Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1103779152223964440Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1207163993269633915Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1181059071226059071Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1153679879232414077Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1160573753266453731Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1160574007235238518Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1181059071226059071Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1207243873252243873Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1160111426262090599Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1181059071226059071Rat
2314011Gluco56Glucose level QTL 56blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1209203273254203273Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1202543537247543537Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1154961463266453731Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1208479811269633915Rat
1358292Cm37Cardiac mass QTL 376.28e-07heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1205674651250674651Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1207243873252243873Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1203300512229359342Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1180739993225739993Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1191190115223964326Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1172718770228180370Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1186298393231298393Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1111949780210707719Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1194786607262083703Rat
2292218Kidm35Kidney mass QTL 35kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1208798288253798288Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1188241285250779312Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1139442053223964440Rat
1300168Bp170Blood pressure QTL 1702.76arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1192995199237995199Rat
61403Niddm4Non-insulin dependent diabetes mellitus QTL 4blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1201464383246464383Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1186298393231298393Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1186298393231298393Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1203675682248675682Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1205674651250674651Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1111949780210707719Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1185979875230979875Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1197807365233480676Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1160573753266453731Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1160573753210707719Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1202851915223964440Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1193400541238400541Rat
6480783Insul19Insulin level QTL 194.33blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1203300512213659238Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1207099883252099883Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1165707719210707719Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1173363824227535316Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1191260175236260175Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1111949780228180370Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1185857683270518180Rat
2325727Pia41Pristane induced arthritis QTL 41joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1188241285233241285Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1160573753210707719Rat

Markers in Region
D1Wox63  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21201,075,483 - 201,075,673 (+)MAPPERmRatBN7.2
Rnor_6.01219,076,395 - 219,076,584NCBIRnor6.0
Rnor_5.01225,949,000 - 225,949,189UniSTSRnor5.0
RGSC_v3.41206,367,587 - 206,367,776UniSTSRGSC3.4
Celera1198,628,669 - 198,628,858UniSTS
Cytogenetic Map1q42UniSTS
AA892051  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21201,125,184 - 201,125,277 (+)MAPPERmRatBN7.2
Rnor_6.01219,125,889 - 219,125,981NCBIRnor6.0
Rnor_5.01225,998,494 - 225,998,586UniSTSRnor5.0
RGSC_v3.41206,418,194 - 206,418,286UniSTSRGSC3.4
Celera1198,677,736 - 198,677,828UniSTS
RH 3.4 Map11560.9UniSTS
Cytogenetic Map1q42UniSTS
RH125233  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21201,125,301 - 201,125,420 (+)MAPPERmRatBN7.2
Rnor_6.01219,126,006 - 219,126,124NCBIRnor6.0
Rnor_5.01225,998,611 - 225,998,729UniSTSRnor5.0
RGSC_v3.41206,418,311 - 206,418,429UniSTSRGSC3.4
Celera1198,677,853 - 198,677,971UniSTS
Cytogenetic Map1q42UniSTS
UniSTS:225274  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81210,554,540 - 210,554,702 (+)Marker Load Pipeline
mRatBN7.21201,125,304 - 201,125,466 (+)MAPPERmRatBN7.2
Rnor_6.01219,126,009 - 219,126,170NCBIRnor6.0
Rnor_5.01225,998,614 - 225,998,775UniSTSRnor5.0
RGSC_v3.41206,418,314 - 206,418,475UniSTSRGSC3.4
Celera1198,677,856 - 198,678,017UniSTS
Cytogenetic Map1q42UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 163 91 90 59 92 59 6 356 192 11 142 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001398586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_017127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230707 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760090 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588852 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588853 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103104 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103122 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC081821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D10262 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D37884 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D37885 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000022824   ⟹   ENSRNOP00000022824
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1210,506,056 - 210,554,752 (+)Ensembl
mRatBN7.2 Ensembl1201,076,860 - 201,125,516 (+)Ensembl
Rnor_6.0 Ensembl1219,077,771 - 219,126,220 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000023020   ⟹   ENSRNOP00000023020
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1210,506,092 - 210,554,751 (+)Ensembl
mRatBN7.2 Ensembl1201,076,860 - 201,125,516 (+)Ensembl
Rnor_6.0 Ensembl1219,078,029 - 219,125,256 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000096831   ⟹   ENSRNOP00000088950
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1210,506,092 - 210,554,751 (+)Ensembl
mRatBN7.2 Ensembl1201,076,860 - 201,125,516 (+)Ensembl
RefSeq Acc Id: NM_001398586   ⟹   NP_001385515
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81210,506,115 - 210,554,753 (+)NCBI
mRatBN7.21201,076,874 - 201,125,517 (+)NCBI
RefSeq Acc Id: NM_017127   ⟹   NP_058823
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81210,506,115 - 210,554,753 (+)NCBI
mRatBN7.21201,076,874 - 201,125,517 (+)NCBI
Rnor_6.01219,077,771 - 219,126,221 (+)NCBI
Rnor_5.01225,950,340 - 225,998,826 (+)NCBI
RGSC_v3.41206,368,963 - 206,418,526 (+)RGD
Celera1198,630,045 - 198,678,068 (+)RGD
Sequence:
RefSeq Acc Id: XM_006230707   ⟹   XP_006230769
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81210,506,069 - 210,554,753 (+)NCBI
mRatBN7.21201,076,804 - 201,125,517 (+)NCBI
Rnor_6.01219,076,618 - 219,126,221 (+)NCBI
Rnor_5.01225,950,340 - 225,998,826 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008760090   ⟹   XP_008758312
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81210,526,429 - 210,554,753 (+)NCBI
mRatBN7.21201,100,872 - 201,125,517 (+)NCBI
Rnor_6.01219,101,925 - 219,126,221 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039103096   ⟹   XP_038959024
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81210,526,428 - 210,554,753 (+)NCBI
mRatBN7.21201,100,872 - 201,125,517 (+)NCBI
RefSeq Acc Id: XM_039103104   ⟹   XP_038959032
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81210,520,743 - 210,554,753 (+)NCBI
mRatBN7.21201,077,440 - 201,125,517 (+)NCBI
RefSeq Acc Id: XM_039103114   ⟹   XP_038959042
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81210,526,432 - 210,554,753 (+)NCBI
mRatBN7.21201,100,872 - 201,125,517 (+)NCBI
RefSeq Acc Id: XM_039103117   ⟹   XP_038959045
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81210,520,746 - 210,554,753 (+)NCBI
mRatBN7.21201,091,506 - 201,125,517 (+)NCBI
RefSeq Acc Id: XM_039103122   ⟹   XP_038959050
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81210,520,746 - 210,554,753 (+)NCBI
mRatBN7.21201,091,506 - 201,125,517 (+)NCBI
RefSeq Acc Id: NP_058823   ⟸   NM_017127
- Peptide Label: isoform 2
- UniProtKB: Q66HK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006230769   ⟸   XM_006230707
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AJV1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008758312   ⟸   XM_008760090
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSRNOP00000022824   ⟸   ENSRNOT00000022824
Ensembl Acc Id: ENSRNOP00000023020   ⟸   ENSRNOT00000023020
RefSeq Acc Id: XP_038959032   ⟸   XM_039103104
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038959045   ⟸   XM_039103117
- Peptide Label: isoform X4
- UniProtKB: A6HYM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038959050   ⟸   XM_039103122
- Peptide Label: isoform X4
- UniProtKB: A6HYM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038959042   ⟸   XM_039103114
- Peptide Label: isoform X4
- UniProtKB: A6HYM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038959024   ⟸   XM_039103096
- Peptide Label: isoform X3
Ensembl Acc Id: ENSRNOP00000088950   ⟸   ENSRNOT00000096831
RefSeq Acc Id: NP_001385515   ⟸   NM_001398586
- Peptide Label: isoform 1
- UniProtKB: Q01134 (UniProtKB/Swiss-Prot),   Q63114 (UniProtKB/Swiss-Prot),   A6HYM1 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q01134-F1-model_v2 AlphaFold Q01134 1-453 view protein structure

Transcriptome

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

Promoters
RGD ID:13690601
Promoter ID:EPDNEW_R1125
Type:multiple initiation site
Name:Chka_1
Description:choline kinase alpha
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_6.01219,077,785 - 219,077,845EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61944 AgrOrtholog
BioCyc Gene G2FUF-56800 BioCyc
BioCyc Pathway PWY-7782 [plasmalogen biosynthesis] BioCyc
  PWY3O-450 [phosphatidylcholine biosynthesis I] BioCyc
BioCyc Pathway Image PWY-7782 BioCyc
  PWY3O-450 BioCyc
Ensembl Genes ENSRNOG00000016791 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000022824 ENTREZGENE
  ENSRNOT00000022824.7 UniProtKB/Swiss-Prot
  ENSRNOT00000023020 ENTREZGENE
  ENSRNOT00000023020.8 UniProtKB/Swiss-Prot
  ENSRNOT00000096831 ENTREZGENE
Gene3D-CATH 3.90.1200.10 UniProtKB/Swiss-Prot
  Phosphorylase Kinase, domain 1 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7109261 IMAGE-MGC_LOAD
InterPro Kinase-like_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:29194 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93538 IMAGE-MGC_LOAD
NCBI Gene 29194 ENTREZGENE
PANTHER CHOLINE KINASE ALPHA UniProtKB/Swiss-Prot
  CHOLINE/ETHANOALAMINE KINASE UniProtKB/Swiss-Prot
Pfam Choline_kinase UniProtKB/Swiss-Prot
PhenoGen Chka PhenoGen
RatGTEx ENSRNOG00000016791 RatGTEx
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot
UniProt A0A8I6AJV1 ENTREZGENE, UniProtKB/TrEMBL
  A6HYM1 ENTREZGENE, UniProtKB/TrEMBL
  A6HYM3_RAT UniProtKB/TrEMBL
  A6HYM4_RAT UniProtKB/TrEMBL
  A6HYM6 ENTREZGENE, UniProtKB/TrEMBL
  CHKA_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q63114 ENTREZGENE
  Q66HK1 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary Q63114 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Chka  choline kinase alpha  Chk  choline kinase  Symbol and Name updated 1299863 APPROVED
2002-06-10 Chk  choline kinase      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_drugs all three alternatively spliced transcripts are upregulated upon treatment with 3-methylcholanthrene and carbon tetrachloride 632361
gene_expression expressed in testis, brain, lung, kidney, and liver 61551
gene_process may serve housekeeping gene functions 632361
gene_protein consists of 435 amino acids with a molecular mass of 49,743 Da 61551
gene_transcript alternatively spliced to produce three different transcripts which are differentially expressed in various tissues 632361