Cck (cholecystokinin) - Rat Genome Database
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Gene: Cck (cholecystokinin) Rattus norvegicus
Analyze
Symbol: Cck
Name: cholecystokinin
RGD ID: 2288
Description: Exhibits neuropeptide hormone activity. Involved in several processes, including learning or memory; positive regulation of cellular protein metabolic process; and regulation of behavioral fear response. Localizes to several cellular components, including axon; dendrite; and perikaryon. Used to study cataract. Orthologous to human CCK (cholecystokinin); INTERACTS WITH 2,2',4,4',5,5'-hexachlorobiphenyl; 2,3,4,7,8-Pentachlorodibenzofuran; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28121,153,499 - 121,160,194 (-)NCBI
Rnor_6.0 Ensembl8130,120,523 - 130,127,392 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08130,120,525 - 130,127,515 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08129,312,785 - 129,319,582 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48126,492,636 - 126,499,220 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18126,512,372 - 126,518,954 (-)NCBI
Celera8120,288,523 - 120,295,093 (-)NCBICelera
RH 3.4 Map81282.1RGD
RH 3.4 Map81254.7RGD
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
15-acetyldeoxynivalenol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP,ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,4,7,8-Pentachlorodibenzofuran  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-acetamidofluorene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-acetyldeoxynivalenol  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
5-aza-2'-deoxycytidine  (ISO)
aflatoxin B1  (ISO)
ammonium chloride  (EXP)
apomorphine  (EXP)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bromosulfophthalein  (ISO)
butanal  (ISO)
butyric acid  (ISO)
capsaicin  (EXP,ISO)
carbon nanotube  (ISO)
chlorpyrifos  (EXP,ISO)
clozapine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cylindrospermopsin  (ISO)
deoxynivalenol  (ISO)
dibutyl phthalate  (EXP)
dinophysistoxin 1  (ISO)
disulfiram  (EXP,ISO)
dorsomorphin  (ISO)
ethanol  (ISO)
ethylene glycol bis(2-aminoethyl)tetraacetic acid  (ISO)
fenamidone  (ISO)
fluoxetine  (EXP,ISO)
folic acid  (ISO)
Fusarenone X  (ISO)
genistein  (ISO)
haloperidol  (EXP)
hydrogen peroxide  (ISO)
irinotecan  (EXP)
kainic acid  (EXP)
malathion  (EXP)
melatonin  (EXP)
methamphetamine  (EXP)
methotrexate  (ISO)
methylseleninic acid  (ISO)
morphine  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
N-Nitrosopyrrolidine  (ISO)
naloxone  (EXP)
nicotine  (ISO)
nitrendipine  (ISO)
nitrobenzenes  (EXP)
Nivalenol  (ISO)
octreotide  (ISO)
orlistat  (ISO)
paracetamol  (ISO)
parathion  (EXP)
parathion-methyl  (EXP)
PCB138  (ISO)
pentanal  (ISO)
progesterone  (ISO)
propanal  (ISO)
resveratrol  (EXP)
rotenone  (ISO)
ruthenium red  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium fluoride  (EXP)
Sodium oleate  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichostatin A  (ISO)
triphenylphosphane oxide  (ISO)
U-73122  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
1. Beinfeld MC Neuropeptides. 1994 Mar;26(3):195-200.
2. Cain BM, etal., J Comp Neurol 2003 Dec 15;467(3):307-25.
3. Cohen H, etal., Neuropeptides. 2002 Oct;36(5):341-52.
4. Date Y, etal., Endocrinology. 2005 Aug;146(8):3518-25. Epub 2005 May 12.
5. Deng PY, etal., J Neurosci. 2010 Apr 14;30(15):5136-48. doi: 10.1523/JNEUROSCI.5711-09.2010.
6. Deschenes RJ, etal., Ann N Y Acad Sci 1985;448:53-60.
7. Deschenes RJ, etal., J Biol Chem 1985 Jan 25;260(2):1280-6.
8. Deschenes RJ, etal., Proc Natl Acad Sci U S A 1984 Feb;81(3):726-30.
9. Devlin MJ, etal., Am J Clin Nutr. 1997 Jan;65(1):114-20.
10. Fujii C, etal., Clin Genet. 1999 Nov;56(5):394-9.
11. Garvey MJ, etal., Psychiatry Res 1998 Aug 17;80(2):149-53.
12. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
13. Gay J, etal., Brain Behav Immun. 2003 Feb;17(1):35-42.
14. Giacobini P, etal., J Neurosci. 2004 May 19;24(20):4737-48.
15. GOA data from the GO Consortium
16. Gukovskaya AS, etal., J Biol Chem 2002 Jun 21;277(25):22595-604.
17. Gukovskaya AS, etal., J Biol Chem 2002 Jun 21;277(25):22595-604. Epub 2002 Apr 18.
18. Hao LN, etal., Chin Med J (Engl). 2006 Sep 5;119(17):1451-7.
19. Hernandez-Gomez AM, etal., Amino Acids 2002;23(1-3):283-90.
20. Hnasko TS, etal., Brain Res. 2004 Oct 15;1023(2):309-18.
21. Katsel PL and Greenstein RJ, J Biol Chem 2001 Jan 5;276(1):752-8.
22. Kuntz E, etal., JOP. 2004 Nov 10;5(6):464-75.
23. Kuwano R, etal., J Biochem (Tokyo) 1984 Sep;96(3):923-6.
24. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
25. Mascagni F and McDonald AJ, Brain Res. 2003 Jun 27;976(2):171-84.
26. McLaughlin CL, etal., Am J Physiol. 1983 Jan;244(1):E61-5.
27. MGD data from the GO Consortium
28. Morozov YM and Freund TF, Neuroscience. 2003;120(4):923-39.
29. NCBI rat LocusLink and RefSeq merged data July 26, 2002
30. Piiper A, etal., J Biol Chem. 2003 Feb 28;278(9):7065-72. Epub 2002 Dec 20.
31. Reidelberger RD, etal., Am J Physiol Regul Integr Comp Physiol 2003 Jan;284(1):R66-75.
32. RGD automated data pipeline
33. RGD automated import pipeline for gene-chemical interactions
34. Torres-Lopez JE, etal., Neuropharmacology. 2007 Mar;52(3):788-95. Epub 2006 Dec 6.
35. Wang J, etal., Pharmacogenetics. 2003 Jun;13(6):365-9.
36. Xie JY, etal., J Neurosci. 2005 Jan 12;25(2):409-16.
37. Zwirska-Korczala K, etal., J Physiol Pharmacol. 2007 Mar;58 Suppl 1:13-35.
Additional References at PubMed
PMID:7681836   PMID:12479974   PMID:12829630   PMID:12914981   PMID:12946704   PMID:14559369   PMID:14698681   PMID:15040036   PMID:15260493   PMID:15464747   PMID:15561439   PMID:16143427  
PMID:16274843   PMID:16535834   PMID:16837074   PMID:17505309   PMID:17904218   PMID:18297100   PMID:18587446   PMID:18776046   PMID:19253017   PMID:19656488   PMID:19726710   PMID:19896983  
PMID:21093507   PMID:21239630   PMID:21270124   PMID:21525858   PMID:22813405   PMID:23027805   PMID:23785073   PMID:24121132   PMID:24309294   PMID:24487953   PMID:24564397   PMID:24732637  
PMID:25117406   PMID:25627687   PMID:25846408   PMID:26167074   PMID:27534875   PMID:27535680   PMID:28466358   PMID:28684275   PMID:29339381   PMID:31012948  


Genomics

Comparative Map Data
Cck
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28121,153,499 - 121,160,194 (-)NCBI
Rnor_6.0 Ensembl8130,120,523 - 130,127,392 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08130,120,525 - 130,127,515 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08129,312,785 - 129,319,582 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48126,492,636 - 126,499,220 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18126,512,372 - 126,518,954 (-)NCBI
Celera8120,288,523 - 120,295,093 (-)NCBICelera
RH 3.4 Map81282.1RGD
RH 3.4 Map81254.7RGD
Cytogenetic Map8q32NCBI
CCK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl342,257,825 - 42,266,185 (-)EnsemblGRCh38hg38GRCh38
GRCh38342,257,826 - 42,266,185 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37342,299,318 - 42,307,677 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36342,274,322 - 42,281,399 (-)NCBINCBI36hg18NCBI36
Build 34342,274,321 - 42,281,399NCBI
Celera342,238,692 - 42,247,029 (-)NCBI
Cytogenetic Map3p22.1NCBI
HuRef342,342,652 - 42,351,001 (-)NCBIHuRef
CHM1_1342,250,423 - 42,258,799 (-)NCBICHM1_1
Cck
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399121,318,890 - 121,324,760 (-)NCBIGRCm39mm39
GRCm39 Ensembl9121,318,890 - 121,324,760 (-)Ensembl
GRCm389121,489,824 - 121,495,694 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9121,489,824 - 121,495,694 (-)EnsemblGRCm38mm10GRCm38
MGSCv379121,398,942 - 121,404,807 (-)NCBIGRCm37mm9NCBIm37
MGSCv369121,338,523 - 121,344,360 (-)NCBImm8
Celera9121,960,523 - 121,966,357 (-)NCBICelera
Cytogenetic Map9F4NCBI
cM Map972.43NCBI
Cck
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542028,438,806 - 28,443,458 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542028,438,806 - 28,443,458 (+)NCBIChiLan1.0ChiLan1.0
CCK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1342,431,021 - 42,439,396 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl342,431,022 - 42,439,396 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0342,168,012 - 42,176,358 (-)NCBIMhudiblu_PPA_v0panPan3
CCK
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2311,414,249 - 11,454,198 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12311,414,254 - 11,419,990 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cck
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366952,776,705 - 2,782,280 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1325,937,645 - 25,946,197 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11325,940,674 - 25,945,879 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21328,610,211 - 28,615,371 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCK
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1223,698,192 - 3,705,443 (-)NCBI
ChlSab1.1 Ensembl223,698,173 - 3,704,956 (-)Ensembl
Cck
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473077,310,080 - 77,314,258 (+)NCBI

Position Markers
RH94772  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.08130,120,447 - 130,120,651NCBIRnor6.0
Rnor_5.08129,312,708 - 129,312,912UniSTSRnor5.0
RGSC_v3.48126,492,558 - 126,492,762UniSTSRGSC3.4
Celera8120,288,445 - 120,288,649UniSTS
RH 3.4 Map81254.7UniSTS
Cytogenetic Map8q32UniSTS
RH94468  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.08130,125,978 - 130,126,064NCBIRnor6.0
Rnor_5.08129,318,239 - 129,318,325UniSTSRnor5.0
RGSC_v3.48126,498,089 - 126,498,175UniSTSRGSC3.4
Celera8120,293,977 - 120,294,063UniSTS
Cytogenetic Map8q32UniSTS
Cck  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.08130,120,810 - 130,120,902NCBIRnor6.0
Rnor_5.08129,313,071 - 129,313,163UniSTSRnor5.0
RGSC_v3.48126,492,921 - 126,493,013UniSTSRGSC3.4
Celera8120,288,808 - 120,288,900UniSTS
Cytogenetic Map8q32UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)889058229132243842Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8100873811133307652Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8100873811133307652Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102051964133307652Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8104682575133307652Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)8104682575133307652Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:149
Count of miRNA genes:118
Interacting mature miRNAs:130
Transcripts:ENSRNOT00000026159
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 45
Low 3 7 5 4 4 29 20 24 2
Below cutoff 29 25 18 16 18 6 9 13 16 6 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026159   ⟹   ENSRNOP00000026159
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl8130,120,523 - 130,127,392 (-)Ensembl
RefSeq Acc Id: NM_012829   ⟹   NP_036961
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28121,153,500 - 121,160,084 (-)NCBI
Rnor_6.08130,120,525 - 130,127,109 (-)NCBI
Rnor_5.08129,312,785 - 129,319,582 (-)NCBI
RGSC_v3.48126,492,636 - 126,499,220 (-)RGD
Celera8120,288,523 - 120,295,093 (-)RGD
Sequence:
RefSeq Acc Id: XM_017595477   ⟹   XP_017450966
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08130,122,888 - 130,127,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039080873   ⟹   XP_038936801
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28121,153,499 - 121,160,194 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_036961   ⟸   NM_012829
- Peptide Label: preproprotein
- UniProtKB: P01355 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017450966   ⟸   XM_017595477
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000026159   ⟸   ENSRNOT00000026159
RefSeq Acc Id: XP_038936801   ⟸   XM_039080873
- Peptide Label: isoform X1

Transcriptome

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

Promoters
RGD ID:13696388
Promoter ID:EPDNEW_R6912
Type:multiple initiation site
Name:Cck_1
Description:cholecystokinin
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_6.08130,127,059 - 130,127,119EPDNEW

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)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2288 AgrOrtholog
Ensembl Genes ENSRNOG00000019321 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000026159 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000026159 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro CCK-like UniProtKB/Swiss-Prot
  Gastrin/CCK UniProtKB/Swiss-Prot
  Gastrin/cholecystokinin_CS UniProtKB/Swiss-Prot
KEGG Report rno:25298 UniProtKB/Swiss-Prot
NCBI Gene 25298 ENTREZGENE
PANTHER PTHR10786 UniProtKB/Swiss-Prot
Pfam Gastrin UniProtKB/Swiss-Prot
PhenoGen Cck PhenoGen
PROSITE GASTRIN UniProtKB/Swiss-Prot
UniProt CCKN_RAT UniProtKB/Swiss-Prot, ENTREZGENE


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

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in the brain and the endocrine cells of the gastrointestinal tract 628552
gene_function acts as a neurotransmitter or neuromodulator in the brain  
gene_process a neurotransmitter in the brain 67923
gene_process a neurotransmitter in the brain 625521
gene_process has hemacrine and autocrine action in the gut 67923
gene_process has hemacrine and autocrine action in the gut 625521
gene_process stimulates the intestinal vagal sensory neurons to inhibit gastric emptying 628552
gene_process acts as a neurotransmitter or neuromodulator in the brain 628552
gene_process stimulates apoptosis and death signaling pathways in rat pancreatic acinar cells 1298735
gene_regulation transcriptional control by phorbol ester, cAMP, and gonadal steroids, as well as glucocorticoids 67923
gene_regulation transcriptional control by phorbol ester, cAMP, and gonadal steroids, as well as glucocorticoids 625521
gene_transcript over-lapped AP-2- and NF-kB-responsive elements within the 17-base pair sequence between 2149 and 2134 of the distal 5 flanking region||several cis-elements, important in transcriptional control, identified within the first 119 bp of the 59 flanking regio 67923
gene_transcript severalcis-elements,importantintranscriptionalcontrol,identifiedwithinthefirst119bpofthe59flankingregion 67923