Cxcr6 (C-X-C motif chemokine receptor 6) - Rat Genome Database
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Gene: Cxcr6 (C-X-C motif chemokine receptor 6) Rattus norvegicus
Analyze
Symbol: Cxcr6
Name: C-X-C motif chemokine receptor 6
RGD ID: 1642118
Description: Predicted to have C-X-C chemokine binding activity and C-X-C chemokine receptor activity. Predicted to be involved in G protein-coupled receptor signaling pathway; chemokine-mediated signaling pathway; and inflammatory response. Predicted to localize to integral component of membrane. Orthologous to human CXCR6 (C-X-C motif chemokine receptor 6); PARTICIPATES IN chemokine mediated signaling pathway; cytokine mediated signaling pathway; INTERACTS WITH bisphenol A; bromobenzene; furan.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: C-X-C chemokine receptor type 6; chemokine (C-X-C motif) receptor 6; chemokine receptor CXCR6
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
mRatBN7.28123,434,417 - 123,439,568 (+)NCBI
Rnor_6.0 Ensembl8132,869,712 - 132,870,767 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08132,869,712 - 132,870,766 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08132,020,812 - 132,021,866 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48128,569,564 - 128,570,619 (+)NCBIRGSC3.4rn4RGSC3.4
Celera8122,545,994 - 122,547,048 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:11017100   PMID:17437534  


Genomics

Comparative Map Data
Cxcr6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28123,434,417 - 123,439,568 (+)NCBI
Rnor_6.0 Ensembl8132,869,712 - 132,870,767 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08132,869,712 - 132,870,766 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08132,020,812 - 132,021,866 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48128,569,564 - 128,570,619 (+)NCBIRGSC3.4rn4RGSC3.4
Celera8122,545,994 - 122,547,048 (+)NCBICelera
Cytogenetic Map8q32NCBI
CXCR6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl345,940,933 - 45,948,351 (+)EnsemblGRCh38hg38GRCh38
GRCh38345,940,915 - 45,948,351 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37345,982,407 - 45,989,843 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36345,959,977 - 45,964,849 (+)NCBINCBI36hg18NCBI36
Build 34345,959,976 - 45,964,849NCBI
Celera345,922,592 - 45,927,464 (+)NCBI
Cytogenetic Map3p21.31NCBI
HuRef346,029,014 - 46,033,886 (+)NCBIHuRef
CHM1_1345,934,937 - 45,939,809 (+)NCBICHM1_1
Cxcr6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399123,635,542 - 123,640,819 (+)NCBIGRCm39mm39
GRCm39 Ensembl9123,635,540 - 123,640,825 (+)Ensembl
GRCm389123,806,477 - 123,811,754 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9123,806,475 - 123,811,760 (+)EnsemblGRCm38mm10GRCm38
MGSCv379123,715,595 - 123,720,872 (+)NCBIGRCm37mm9NCBIm37
MGSCv369123,655,183 - 123,660,452 (+)NCBImm8
Celera9124,254,890 - 124,260,158 (+)NCBICelera
Cytogenetic Map9F4NCBI
cM Map974.57NCBI
Cxcr6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542026,058,170 - 26,059,216 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542026,056,464 - 26,061,992 (-)NCBIChiLan1.0ChiLan1.0
CXCR6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1346,955,051 - 46,962,490 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl346,960,610 - 46,961,638 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0345,848,722 - 45,856,145 (+)NCBIMhudiblu_PPA_v0panPan3
CXCR6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2042,565,251 - 42,566,276 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12042,565,251 - 42,569,647 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cxcr6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493659631,641 - 44,561 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CXCR6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1329,095,901 - 29,100,670 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11329,095,900 - 29,100,666 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21332,192,310 - 32,197,076 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CXCR6
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1227,413,871 - 7,419,229 (+)NCBI
ChlSab1.1 Ensembl227,414,334 - 7,419,213 (+)Ensembl
Cxcr6
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473074,960,324 - 74,961,337 (-)NCBI

Position Markers
BQ205885  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.08132,871,049 - 132,871,214NCBIRnor6.0
Rnor_5.08132,022,149 - 132,022,314UniSTSRnor5.0
RGSC_v3.48128,570,901 - 128,571,066UniSTSRGSC3.4
Celera8122,547,331 - 122,547,496UniSTS
RH 3.4 Map81333.2UniSTS
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
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:69
Count of miRNA genes:60
Interacting mature miRNAs:63
Transcripts:ENSRNOT00000008294
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 8 15 1 5
Low 3 14 17 9 4 9 8 8 8 15 11 6 8
Below cutoff 9 14 14 14 3 4 14 16

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001102587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide DQ132631 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862605 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862609 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862610 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862611 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862612 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862613 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862616 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862617 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862619 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862620 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862621 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN862622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000008294   ⟹   ENSRNOP00000008294
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl8132,869,712 - 132,870,767 (+)Ensembl
RefSeq Acc Id: NM_001102587   ⟹   NP_001096057
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28123,437,779 - 123,439,568 (+)NCBI
Rnor_6.08132,869,712 - 132,870,766 (+)NCBI
Rnor_5.08132,020,812 - 132,021,866 (+)NCBI
RGSC_v3.48128,569,564 - 128,570,619 (+)RGD
Celera8122,545,994 - 122,547,048 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039080642   ⟹   XP_038936570
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28123,434,417 - 123,439,568 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001096057   ⟸   NM_001102587
- UniProtKB: A7ISD5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000008294   ⟸   ENSRNOT00000008294
RefSeq Acc Id: XP_038936570   ⟸   XM_039080642
- Peptide Label: isoform X1
Protein Domains
G_PROTEIN_RECEP_F1_2

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHRSP/Gcrc (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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/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)
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1642118 AgrOrtholog
Ensembl Genes ENSRNOG00000006319 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000008294 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008294 ENTREZGENE, UniProtKB/TrEMBL
InterPro 7TM_GPCR_Rhodpsn UniProtKB/TrEMBL
  Chmkine_rcpt UniProtKB/TrEMBL
  CXC_6_rcpt UniProtKB/TrEMBL
  GPCR_Rhodpsn_supfam UniProtKB/TrEMBL
KEGG Report rno:100124593 UniProtKB/TrEMBL
NCBI Gene 100124593 ENTREZGENE
PANTHER PTHR10489:SF705 UniProtKB/TrEMBL
Pfam 7tm_1 UniProtKB/TrEMBL
PhenoGen Cxcr6 PhenoGen
PRINTS CCCHEMOKINER UniProtKB/TrEMBL
  CXCCHMKINER6 UniProtKB/TrEMBL
  GPCRRHODOPSN UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
UniProt A0A6M4C4C7_RAT UniProtKB/TrEMBL
  A0A6M4C4D9_RAT UniProtKB/TrEMBL
  A0A6M4C4F5_RAT UniProtKB/TrEMBL
  A0A6M4C4G2_RAT UniProtKB/TrEMBL
  A0A6M4C4J1_RAT UniProtKB/TrEMBL
  A0A6M4C4K1_RAT UniProtKB/TrEMBL
  A0A6M4C4N8_RAT UniProtKB/TrEMBL
  A0A6M4C4Q0_RAT UniProtKB/TrEMBL
  A0A6M4C4Q9_RAT UniProtKB/TrEMBL
  A0A6M4C4U0_RAT UniProtKB/TrEMBL
  A0A6M4C527_RAT UniProtKB/TrEMBL
  A0A6M4C531_RAT UniProtKB/TrEMBL
  A0A6M4C534_RAT UniProtKB/TrEMBL
  A7ISD5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-22 Cxcr6  C-X-C motif chemokine receptor 6  Cxcr6  chemokine (C-X-C motif) receptor 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-16 Cxcr6  chemokine (C-X-C motif) receptor 6  Cxcr6  chemokine receptor CXCR6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-08-31 Cxcr6  chemokine receptor CXCR6      Symbol and Name status set to provisional 70820 PROVISIONAL