Celsr1 (cadherin, EGF LAG seven-pass G-type receptor 1) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Celsr1 (cadherin, EGF LAG seven-pass G-type receptor 1) Rattus norvegicus
Analyze
Symbol: Celsr1
Name: cadherin, EGF LAG seven-pass G-type receptor 1
RGD ID: 1560078
Description: Predicted to have G protein-coupled receptor activity and calcium ion binding activity. Predicted to be involved in several processes, including Rho protein signal transduction; apical protein localization; and morphogenesis of an epithelium. Predicted to localize to nucleoplasm and plasma membrane. Orthologous to human CELSR1 (cadherin EGF LAG seven-pass G-type receptor 1); PARTICIPATES IN Wnt signaling, the planar cell polarity pathway; INTERACTS WITH 1-naphthyl isothiocyanate; ammonium chloride; beta-naphthoflavone.
Type: protein-coding
RefSeq Status: MODEL
Also known as: cadherin EGF LAG seven-pass G-type receptor 1; cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila); flamingo-like protein celsr1; LOC300128
Orthologs:
Homo sapiens (human) : CELSR1 (cadherin EGF LAG seven-pass G-type receptor 1)  HGNC  Alliance
Mus musculus (house mouse) : Celsr1 (cadherin, EGF LAG seven-pass G-type receptor 1)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Celsr1 (cadherin EGF LAG seven-pass G-type receptor 1)
Pan paniscus (bonobo/pygmy chimpanzee) : CELSR1 (cadherin EGF LAG seven-pass G-type receptor 1)
Canis lupus familiaris (dog) : CELSR1 (cadherin EGF LAG seven-pass G-type receptor 1)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Celsr1 (cadherin EGF LAG seven-pass G-type receptor 1)
Sus scrofa (pig) : LOC102159820 (cadherin EGF LAG seven-pass G-type receptor 1)
Chlorocebus sabaeus (African green monkey) : CELSR1 (cadherin EGF LAG seven-pass G-type receptor 1)
Heterocephalus glaber (naked mole-rat) : Celsr1 (cadherin EGF LAG seven-pass G-type receptor 1)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.07126,774,010 - 126,914,085 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7126,775,516 - 126,913,585 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07126,484,850 - 126,625,684 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47123,900,366 - 124,036,122 (-)NCBIRGSC3.4rn4RGSC3.4
Celera7113,278,640 - 113,416,057 (-)NCBICelera
Cytogenetic Map7q34NCBI
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:10932191   PMID:12842012   PMID:15632090   PMID:15744052   PMID:15955893   PMID:16687519   PMID:17229766   PMID:18849982   PMID:19357712   PMID:20223754   PMID:20353824   PMID:20631168  
PMID:20643356   PMID:20704721   PMID:32070035  


Genomics

Comparative Map Data
Celsr1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.07126,774,010 - 126,914,085 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7126,775,516 - 126,913,585 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07126,484,850 - 126,625,684 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47123,900,366 - 124,036,122 (-)NCBIRGSC3.4rn4RGSC3.4
Celera7113,278,640 - 113,416,057 (-)NCBICelera
Cytogenetic Map7q34NCBI
CELSR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2246,360,834 - 46,537,170 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl2246,360,834 - 46,537,620 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl2246,360,834 - 46,537,600 (-)EnsemblGRCh38hg38GRCh38
GRCh382246,361,174 - 46,537,620 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372246,756,731 - 46,933,067 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362245,135,395 - 45,311,731 (-)NCBINCBI36hg18NCBI36
Build 342245,077,249 - 45,253,586NCBI
Celera2230,664,148 - 30,840,512 (-)NCBI
Cytogenetic Map22q13.31NCBI
HuRef2229,700,771 - 29,879,343 (-)NCBIHuRef
CHM1_12246,715,504 - 46,891,675 (-)NCBICHM1_1
Celsr1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391585,782,959 - 85,918,424 (-)NCBI
GRCm381585,898,758 - 86,034,223 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1585,898,929 - 86,034,203 (-)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl1585,898,929 - 86,033,777 (-)EnsemblGRCm38mm10GRCm38
MGSCv371585,729,188 - 85,864,207 (-)NCBIGRCm37mm9NCBIm37
MGSCv361585,726,695 - 85,861,543 (-)NCBImm8
Celera1588,032,450 - 88,175,947 (-)NCBICelera
Cytogenetic Map15E2NCBI
cM Map1540.42NCBI
Celsr1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541330,457,030 - 30,561,124 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541330,455,194 - 30,561,124 (-)NCBIChiLan1.0ChiLan1.0
CELSR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12245,427,275 - 45,604,286 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2245,428,159 - 45,604,453 (-)Ensemblpanpan1.1panPan2
CELSR1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1019,707,804 - 19,837,481 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11019,704,104 - 19,836,886 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Celsr1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366293,453,384 - 3,570,250 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC102159820
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl52,980,069 - 3,204,803 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.153,114,410 - 3,203,378 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.25586,808 - 596,547 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CELSR1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1928,844,644 - 29,030,216 (-)Ensembl
ChlSab1.11928,842,332 - 29,030,672 (-)NCBI
Celsr1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247523,426,317 - 3,537,219 (+)NCBI

Position Markers
RH131921  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.07126,774,042 - 126,774,222NCBIRnor6.0
Rnor_5.07126,484,882 - 126,485,062UniSTSRnor5.0
RGSC_v3.47123,899,318 - 123,899,498UniSTSRGSC3.4
Celera7113,278,672 - 113,278,852UniSTS
Cytogenetic Map7q34UniSTS
RH 3.4 Map7922.9UniSTS
RH132102  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.07126,773,878 - 126,774,069NCBIRnor6.0
Rnor_5.07126,484,718 - 126,484,909UniSTSRnor5.0
RGSC_v3.47123,899,154 - 123,899,345UniSTSRGSC3.4
Celera7113,278,508 - 113,278,699UniSTS
Cytogenetic Map7q34UniSTS
RH 3.4 Map7922.4UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)748118835128611831Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)750704769128085642Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)777428105127748511Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)781645773140745067Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)785595369130595369Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)785595369130595369Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)788365265133365265Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)788365265134673427Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)791018361136018361Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)793726906138726906Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)793726906138726906Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)796630946141630946Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)7100160423140335001Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7111519266143965591Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7121654760145729302Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7121986439143965591Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7122421276143965415Rat
1582240Sffal1Serum free fatty acids level QTL 13.40.0021blood free fatty acid amount (VT:0001553)serum free fatty acids level (CMO:0000547)7126463649134098026Rat
631201Panci1Pancreas inflammation QTL 100.001pancreas integrity trait (VT:0010560)percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)7126463827137325116Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:52
Count of miRNA genes:48
Interacting mature miRNAs:51
Transcripts:ENSRNOT00000036025
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 26 1 1 35 22 26 6
Low 2 17 21 6 18 6 2 2 39 13 8 5 2
Below cutoff 1 33 33 33 6 8 7 6

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_006226188 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603474 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603475 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07058590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07058591 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07073337 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07073338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01052024 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01052025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01052026 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01052027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01052028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01052029 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01052030 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01052031 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC135400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC141997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY212290 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000036025   ⟹   ENSRNOP00000029944
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7126,775,516 - 126,913,585 (-)Ensembl
RefSeq Acc Id: XM_006226188   ⟹   XP_006226250
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera7113,278,640 - 113,416,057 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242167   ⟹   XP_006242229
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07126,774,010 - 126,914,084 (-)NCBI
Rnor_5.07126,484,850 - 126,625,684 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595277   ⟹   XP_017450766
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07126,774,010 - 126,914,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595278   ⟹   XP_017450767
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07126,774,010 - 126,914,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595279   ⟹   XP_017450768
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07126,775,612 - 126,914,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017603473   ⟹   XP_017458962
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera7113,278,640 - 113,416,057 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017603474   ⟹   XP_017458963
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera7113,278,640 - 113,416,057 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017603475   ⟹   XP_017458964
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera7113,280,242 - 113,416,057 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_006226250   ⟸   XM_006226188
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006242229   ⟸   XM_006242167
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017458963   ⟸   XM_017603474
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017458962   ⟸   XM_017603473
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017458964   ⟸   XM_017603475
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017450767   ⟸   XM_017595278
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017450766   ⟸   XM_017595277
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017450768   ⟸   XM_017595279
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000029944   ⟸   ENSRNOT00000036025
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)
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
WKY/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
WKY/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
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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 126487502 126487503 C G snv HTX/Kyo (KyushuU)
7 126515458 126515459 C G snv KFRS3B/Kyo (KyushuU), FHH/EurMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), SR/JrHsd (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), WAG/Rij (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), BBDP/WorN (KNAW), SBN/Ygl (KNAW), F344/NRrrc (Illumina) (KNAW), BUF/N (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), FHH/EurMcwi (KNAW), LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), LEW/Crl (KNAW), LEW/NCrl (KNAW), M520/N (KNAW), WN/N (KNAW), SDLEF7/Barth (UDEL), BUF/MNa (KyushuU), NIG-III/Hok (KyushuU), F344/DuCrlCrlj (KyushuU), LE/Stm (KyushuU), F344/NSlc (KyushuU), F344/Stm (KyushuU), HWY/Slc (KyushuU), LEC/Tj (KyushuU), F344/Jcl (KyushuU), BDIX/NemOda (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 126804618 126804619 C G snv ACI/EurMcwi (MCW), WAG/Rij (RGD), FHH/EurMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), CDS, ACI/N (MCW), COP/CrCrl (MCW & UW), Buf/N (MCW), F344/NRrrc (MCW), M520/N (MCW), WN/N (MCW), ACI/EurMcwi (RGD), BBDP/Wor (RGD), F344/NCrl (RGD), FHH/EurMcwi (RGD), LE/Stm (RGD), SBN/Ygl (RGD), SR/JrHsd (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD)
7 126912126 126912127 G A snv BN/SsN (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560078 AgrOrtholog
Ensembl Genes ENSRNOG00000021285 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000029944 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000036025 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 4.10.1240.10 UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin-like UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  ConA-like_subgrp UniProtKB/TrEMBL
  EG-like_dom UniProtKB/TrEMBL
  EGF-like_Ca-bd_dom UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/TrEMBL
  GAIN_dom_N UniProtKB/TrEMBL
  GPCR_2-like UniProtKB/TrEMBL
  GPCR_2_extracell_dom_sf UniProtKB/TrEMBL
  GPCR_2_extracellular_dom UniProtKB/TrEMBL
  GPCR_2_secretin-like UniProtKB/TrEMBL
  GPS UniProtKB/TrEMBL
  Growth_fac_rcpt_N_dom UniProtKB/TrEMBL
  Laminin_EGF UniProtKB/TrEMBL
  Laminin_G UniProtKB/TrEMBL
NCBI Gene 300128 ENTREZGENE
Pfam 7tm_2 UniProtKB/TrEMBL
  Cadherin UniProtKB/TrEMBL
  EGF UniProtKB/TrEMBL
  GAIN UniProtKB/TrEMBL
  GPS UniProtKB/TrEMBL
  HRM UniProtKB/TrEMBL
  Laminin_EGF UniProtKB/TrEMBL
  Laminin_G_2 UniProtKB/TrEMBL
PhenoGen Celsr1 PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
  GPCRSECRETIN UniProtKB/TrEMBL
PROSITE ASX_HYDROXYL UniProtKB/TrEMBL
  CADHERIN_1 UniProtKB/TrEMBL
  EGF_1 UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  EGF_LAM_1 UniProtKB/TrEMBL
  EGF_LAM_2 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F2_3 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F2_4 UniProtKB/TrEMBL
  GPS UniProtKB/TrEMBL
  LAM_G_DOMAIN UniProtKB/TrEMBL
SMART EGF UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  EGF_Lam UniProtKB/TrEMBL
  GPS UniProtKB/TrEMBL
  HormR UniProtKB/TrEMBL
  LamG UniProtKB/TrEMBL
  SM00112 UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/TrEMBL
  ConA_like_lec_gl UniProtKB/TrEMBL
  SSF57184 UniProtKB/TrEMBL
UniGene Rn.223286 ENTREZGENE
UniProt F1MAS4_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-02-27 Celsr1  cadherin, EGF LAG seven-pass G-type receptor 1  Celsr1  cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-25 Celsr1  cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila)  Celsr1  cadherin EGF LAG seven-pass G-type receptor 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Celsr1  cadherin EGF LAG seven-pass G-type receptor 1  LOC300128  flamingo-like protein celsr1  Symbol and Name updated 1299863 APPROVED
2006-02-09 LOC300128  flamingo-like protein celsr1      Symbol and Name status set to provisional 70820 PROVISIONAL