Ccr6 (C-C motif chemokine receptor 6) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Ccr6 (C-C motif chemokine receptor 6) Rattus norvegicus
Analyze
Symbol: Ccr6
Name: C-C motif chemokine receptor 6
RGD ID: 1308562
Description: Predicted to enable C-C chemokine binding activity and C-C chemokine receptor activity. Involved in positive regulation of cytosolic calcium ion concentration; positive regulation of dendritic cell chemotaxis; and positive regulation of epithelial cell migration. Predicted to be located in cell surface; sperm flagellum; and sperm plasma membrane. Predicted to be active in external side of plasma membrane. Biomarker of membranoproliferative glomerulonephritis and transient cerebral ischemia. Orthologous to human CCR6 (C-C motif chemokine receptor 6); PARTICIPATES IN chemokine mediated signaling pathway; cytokine mediated signaling pathway; INTERACTS WITH 1,2-dimethylhydrazine; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C-C chemokine receptor type 6; CC chemokine receptor 6; chemokine (C-C motif) receptor 6; LOC308163; MGC108876
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2152,474,477 - 52,508,301 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl152,474,168 - 52,498,603 (-)Ensembl
Rnor_6.0153,063,380 - 53,087,519 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl153,065,025 - 53,087,474 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0154,311,531 - 54,335,218 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4147,115,472 - 47,139,825 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1147,118,424 - 47,142,770 (-)NCBI
Celera148,238,928 - 48,261,505 (-)NCBICelera
Cytogenetic Map1q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (EXP,ISO)
1,4-phenylenediamine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-fluoro-2,4-dinitrobenzene  (ISO)
1-nitropyrene  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-naphthylamine  (ISO)
3,7-dihydropurine-6-thione  (EXP)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
asperentin  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
cadmium dichloride  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
chloropicrin  (ISO)
cyclosporin A  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
ethanol  (ISO)
folic acid  (ISO)
furan  (EXP)
irinotecan  (ISO)
iron(2+) sulfate (anhydrous)  (ISO)
leflunomide  (ISO)
lipopolysaccharide  (ISO)
mercaptopurine  (EXP)
methylarsonic acid  (ISO)
mycophenolic acid  (ISO)
mycotoxin  (ISO)
neoechinulin A  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
nicotine  (ISO)
paracetamol  (ISO)
paraoxon  (ISO)
prostaglandin E2  (ISO)
purine-6-thiol  (EXP)
quercetin  (ISO)
resveratrol  (ISO)
rifampicin  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sterigmatocystin  (ISO)
testosterone  (EXP)
tetraphene  (ISO)
titanium dioxide  (ISO)
toluene 2,4-diisocyanate  (ISO)
trichostatin A  (ISO)
urethane  (ISO)
valproic acid  (ISO)
zinc dichloride  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Ayers CM, etal., Int Forum Allergy Rhinol. 2011 Jul-Aug;1(4):296-302. doi: 10.1002/alr.20046. Epub 2011 Apr 11.
2. Cassier PA, etal., BMC Cancer. 2011 May 30;11:213. doi: 10.1186/1471-2407-11-213.
3. Fernandez TD, etal., Allergy. 2008 Jun;63(6):712-9. doi: 10.1111/j.1398-9995.2007.01607.x. Epub 2008 Mar 29.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. GOA data from the GO Consortium
6. Hedrick MN, etal., J Clin Invest. 2009 Aug;119(8):2317-29.
7. Homey B, etal., J Immunol. 2000 Jun 15;164(12):6621-32.
8. Ichimura M, etal., J Oral Pathol Med. 2006 Mar;35(3):167-74.
9. Kobayashi H, etal., J Leukoc Biol. 2004 Mar;75(3):434-42. Epub 2003 Dec 12.
10. Manthey HD, etal., Thromb Haemost. 2013 Nov 27;110(6):1267-77. doi: 10.1160/TH13-01-0017. Epub 2013 Oct 10.
11. McTigue DM, etal., J Neurosci Res. 1998 Aug 1;53(3):368-76.
12. MGD data from the GO Consortium
13. Miyagaki T, etal., Clin Cancer Res. 2011 Dec 15;17(24):7529-38. doi: 10.1158/1078-0432.CCR-11-1192. Epub 2011 Nov 2.
14. Phadke AP, etal., Am J Respir Crit Care Med. 2007 Jun 1;175(11):1165-72. Epub 2007 Mar 22.
15. Pipeline to import KEGG annotations from KEGG into RGD
16. RGD automated data pipeline
17. RGD automated import pipeline for gene-chemical interactions
18. RGD comprehensive gene curation
19. Shao Z, etal., J Immunol. 2009 Dec 1;183(11):7531-8. doi: 10.4049/jimmunol.0901341. Epub 2009 Nov 16.
20. Shirane J, etal., Curr Eye Res. 2004 May;28(5):297-306.
21. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
22. Tao J, etal., Eur J Dermatol. 2011 Sep-Oct;21(5):731-6. doi: 10.1684/ejd.2011.1469.
23. Terao Y, etal., Neurosci Res. 2009 May;64(1):75-82. doi: 10.1016/j.neures.2009.01.017. Epub 2009 Feb 13.
24. Villa L, etal., J Pathol. 2013 Apr;229(5):672-84. doi: 10.1002/path.4151. Epub 2013 Mar 5.
25. Vongsa RA, etal., J Biol Chem. 2009 Apr 10;284(15):10034-45. doi: 10.1074/jbc.M805289200. Epub 2009 Feb 20.
Additional References at PubMed
PMID:12081481   PMID:19050256   PMID:20068036   PMID:23034280   PMID:23620790   PMID:23765988   PMID:24638065   PMID:26704184   PMID:27174992  


Genomics

Comparative Map Data
Ccr6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2152,474,477 - 52,508,301 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl152,474,168 - 52,498,603 (-)Ensembl
Rnor_6.0153,063,380 - 53,087,519 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl153,065,025 - 53,087,474 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0154,311,531 - 54,335,218 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4147,115,472 - 47,139,825 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1147,118,424 - 47,142,770 (-)NCBI
Celera148,238,928 - 48,261,505 (-)NCBICelera
Cytogenetic Map1q12NCBI
CCR6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386167,111,795 - 167,139,141 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl6167,111,807 - 167,139,141 (+)EnsemblGRCh38hg38GRCh38
GRCh376167,525,283 - 167,552,629 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366167,445,285 - 167,472,619 (+)NCBINCBI36hg18NCBI36
Build 346167,506,667 - 167,523,040NCBI
Celera6168,267,636 - 168,294,982 (+)NCBI
Cytogenetic Map6q27NCBI
HuRef6164,997,922 - 165,025,262 (+)NCBIHuRef
CHM1_16167,787,685 - 167,815,011 (+)NCBICHM1_1
T2T-CHM13v2.06168,494,454 - 168,521,816 (+)NCBI
Ccr6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39178,454,875 - 8,477,353 (+)NCBIGRCm39mm39
GRCm39 Ensembl178,454,875 - 8,475,973 (+)Ensembl
GRCm38178,236,041 - 8,258,519 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl178,236,043 - 8,257,141 (+)EnsemblGRCm38mm10GRCm38
MGSCv37178,428,908 - 8,450,006 (+)NCBIGRCm37mm9NCBIm37
MGSCv36178,080,700 - 8,095,301 (+)NCBImm8
Celera178,276,953 - 8,300,589 (+)NCBICelera
Cytogenetic Map17A1NCBI
Ccr6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543914,920,601 - 14,924,191 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543914,921,524 - 14,949,493 (-)NCBIChiLan1.0ChiLan1.0
CCR6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16170,069,689 - 170,084,779 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6170,069,689 - 170,084,779 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06165,094,563 - 165,109,774 (+)NCBIMhudiblu_PPA_v0panPan3
CCR6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1154,932,798 - 54,960,646 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl154,932,690 - 54,959,740 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha155,722,381 - 55,750,218 (+)NCBI
ROS_Cfam_1.0155,113,648 - 55,141,502 (+)NCBI
UMICH_Zoey_3.1155,010,269 - 55,038,459 (+)NCBI
UNSW_CanFamBas_1.0154,859,036 - 54,886,902 (+)NCBI
UU_Cfam_GSD_1.0155,484,239 - 55,512,089 (+)NCBI
Ccr6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946149,431,750 - 149,438,723 (+)NCBI
SpeTri2.0NW_00493648916,669,297 - 16,689,451 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCR6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl12,018,608 - 2,019,821 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.112,016,600 - 2,034,172 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CCR6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11394,865,480 - 94,894,331 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1394,865,936 - 94,894,315 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604066,673,826 - 66,688,967 (+)NCBIVero_WHO_p1.0
Ccr6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462478512,190,802 - 12,203,924 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH130928  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2152,476,288 - 52,476,504 (+)MAPPERmRatBN7.2
Rnor_6.0153,065,194 - 53,065,409NCBIRnor6.0
Rnor_5.0154,313,342 - 54,313,557UniSTSRnor5.0
RGSC_v3.4147,115,695 - 47,115,910UniSTSRGSC3.4
Celera148,239,151 - 48,239,366UniSTS
RH 3.4 Map1620.9UniSTS
Cytogenetic Map1q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1165833076Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)1985600154856001Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11099206555992065Rat
1300167Hrtrt2Heart rate QTL 24.35heart pumping trait (VT:2000009)heart rate (CMO:0000002)11148131275088344Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)11148131282174945Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11148131282174945Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11148131282174945Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11148131282174945Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
1578756Iddm22Insulin dependent diabetes mellitus QTL 222.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)11183518156835181Rat
634353Rends2Renal damage susceptibility QTL 20.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)11933357156983283Rat
724520Bp145Blood pressure QTL 1452.10.0024arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12078482865784828Rat
1357400Bw62Body weight QTL624.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)12234064767340647Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)122340647102268831Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)12887978078430678Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13273727390665040Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)13344984878449848Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)13344984878449848Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13483685879836858Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13483685879836858Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)13483685879836858Rat
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)13523959878430678Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)13523959878430678Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143284731118944897Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143284731118944897Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143284731118944897Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)143284731118944897Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143284731118944897Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14333300288333002Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14580314078430678Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14936146582174945Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:17
Count of miRNA genes:17
Interacting mature miRNAs:17
Transcripts:ENSRNOT00000017302
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.


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 2 1 12 1
Low 1 9 1 7 1 3 6 10
Below cutoff 12 22 16 16 8 10 15 18 20 8

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001013145 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006227922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008758755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008758756 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110677 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110679 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC125884 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC091197 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474059 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF547659 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225692 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227530 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232137 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000017302   ⟹   ENSRNOP00000017302
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl152,474,168 - 52,498,603 (-)Ensembl
Rnor_6.0 Ensembl153,065,025 - 53,087,474 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104774   ⟹   ENSRNOP00000083536
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl152,474,168 - 52,490,122 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114764   ⟹   ENSRNOP00000078735
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl152,474,168 - 52,498,603 (-)Ensembl
RefSeq Acc Id: NM_001013145   ⟹   NP_001013163
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2152,476,066 - 52,498,570 (-)NCBI
Rnor_6.0153,064,971 - 53,087,474 (-)NCBI
Rnor_5.0154,311,531 - 54,335,218 (-)NCBI
RGSC_v3.4147,115,472 - 47,139,825 (-)RGD
Celera148,238,928 - 48,261,505 (-)RGD
Sequence:
RefSeq Acc Id: XM_008758755   ⟹   XP_008756977
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2152,474,477 - 52,489,309 (-)NCBI
Rnor_6.0153,063,380 - 53,078,213 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008758756   ⟹   XP_008756978
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2152,474,477 - 52,484,159 (-)NCBI
Rnor_6.0153,063,380 - 53,076,206 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039110677   ⟹   XP_038966605
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2152,474,477 - 52,508,301 (-)NCBI
RefSeq Acc Id: XM_039110679   ⟹   XP_038966607
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2152,474,477 - 52,508,301 (-)NCBI
RefSeq Acc Id: XM_039110685   ⟹   XP_038966613
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2152,474,477 - 52,508,301 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001013163   ⟸   NM_001013145
- UniProtKB: Q5BK58 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008756977   ⟸   XM_008758755
- Peptide Label: isoform X1
- UniProtKB: Q5BK58 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008756978   ⟸   XM_008758756
- Peptide Label: isoform X1
- UniProtKB: Q5BK58 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000017302   ⟸   ENSRNOT00000017302
RefSeq Acc Id: XP_038966613   ⟸   XM_039110685
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966607   ⟸   XM_039110679
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966605   ⟸   XM_039110677
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000083536   ⟸   ENSRNOT00000104774
RefSeq Acc Id: ENSRNOP00000078735   ⟸   ENSRNOT00000114764
Protein Domains
G_PROTEIN_RECEP_F1_2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5BK58-F1-model_v2 AlphaFold Q5BK58 1-366 view protein structure

Transcriptome

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

Promoters
RGD ID:13689630
Promoter ID:EPDNEW_R154
Type:single initiation site
Name:Ccr6_1
Description:C-C motif chemokine receptor 6
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_6.0153,087,502 - 53,087,562EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308562 AgrOrtholog
BioCyc Gene G2FUF-61509 BioCyc
Ensembl Genes ENSRNOG00000012964 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000017302 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000083536 ENTREZGENE
Ensembl Transcript ENSRNOT00000017302 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000104774 ENTREZGENE
IMAGE_CLONE IMAGE:7374663 IMAGE-MGC_LOAD
InterPro 7TM_GPCR_Rhodpsn UniProtKB/TrEMBL
  CC_6_rcpt UniProtKB/TrEMBL
  Chmkine_rcpt UniProtKB/TrEMBL
  GPCR_Rhodpsn_supfam UniProtKB/TrEMBL
KEGG Report rno:308163 UniProtKB/TrEMBL
MGC_CLONE MGC:108876 IMAGE-MGC_LOAD
NCBI Gene 308163 ENTREZGENE
PANTHER PTHR10489:SF611 UniProtKB/TrEMBL
Pfam 7tm_1 UniProtKB/TrEMBL
PhenoGen Ccr6 PhenoGen
PRINTS CCCHEMOKINER UniProtKB/TrEMBL
  CHEMOKINER6 UniProtKB/TrEMBL
  GPCRRHODOPSN UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
UniProt Q5BK58 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-22 Ccr6  C-C motif chemokine receptor 6  Ccr6  chemokine (C-C motif) receptor 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Ccr6  chemokine (C-C motif) receptor 6  Ccr6_predicted  chemokine (C-C motif) receptor 6 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Ccr6_predicted  chemokine (C-C motif) receptor 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED