Wnt1 (Wnt family member 1) - Rat Genome Database

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Gene: Wnt1 (Wnt family member 1) Rattus norvegicus
Analyze
Symbol: Wnt1
Name: Wnt family member 1
RGD ID: 1597195
Description: Predicted to have cytokine activity; frizzled binding activity; and protein domain specific binding activity. Involved in animal organ regeneration; cellular response to peptide hormone stimulus; and hepatocyte differentiation. Predicted to localize to cell surface; cytoplasm; and extracellular space. Human ortholog(s) of this gene implicated in osteogenesis imperfecta type 15 and osteoporosis. Orthologous to human WNT1 (Wnt family member 1); PARTICIPATES IN Wnt signaling pathway; Wnt signaling, canonical pathway; basal cell carcinoma pathway; INTERACTS WITH atrazine; benzo[a]pyrene; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Int1; proto-oncogene Wnt-1; wingless-related MMTV integration site 1; Wingless-type MMTV integration site 1 homolog; Wingless-type MMTV integration site 1, homolog; wingless-type MMTV integration site family, member 1; wingless-type MMTV integration site family, member 1 (mapped); Wnt1_mapped
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
mRatBN7.27129,938,604 - 129,942,651 (+)NCBI
Rnor_6.0 Ensembl7140,464,999 - 140,469,046 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07140,464,999 - 140,469,046 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X114,975,118 - 114,979,165 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47137,557,836 - 137,561,883 (+)NCBIRGSC3.4rn4RGSC3.4
Celera7126,427,473 - 126,431,520 (+)NCBICelera
Cytogenetic Map7q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ regeneration  (IMP)
astrocyte-dopaminergic neuron signaling  (ISO)
bone development  (ISO)
branching involved in ureteric bud morphogenesis  (ISO)
canonical Wnt signaling pathway  (IBA,ISO)
canonical Wnt signaling pathway involved in midbrain dopaminergic neuron differentiation  (ISO)
cell fate commitment  (IBA)
cell proliferation in midbrain  (ISO)
cell-cell signaling  (ISO)
cellular response to peptide hormone stimulus  (IEP)
central nervous system morphogenesis  (ISO)
cerebellum development  (ISO)
cerebellum formation  (ISO)
diencephalon development  (ISO)
dopaminergic neuron differentiation  (ISO)
embryonic axis specification  (ISO)
embryonic brain development  (ISO)
forebrain anterior/posterior pattern specification  (ISO)
hematopoietic stem cell proliferation  (ISO)
hepatocyte differentiation  (IMP)
inner ear morphogenesis  (ISO)
metencephalon development  (ISO)
midbrain development  (ISO)
midbrain dopaminergic neuron differentiation  (ISO)
midbrain-hindbrain boundary development  (ISO)
midbrain-hindbrain boundary maturation during brain development  (ISO)
myoblast fusion  (ISO)
myotube differentiation  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of BMP signaling pathway  (ISO)
negative regulation of cell aging  (ISO)
negative regulation of cell differentiation  (ISO)
negative regulation of cell-cell adhesion  (ISO)
negative regulation of cell-substrate adhesion  (ISO)
negative regulation of fat cell differentiation  (ISO)
negative regulation of oxidative stress-induced neuron death  (ISO)
negative regulation of transforming growth factor beta receptor signaling pathway  (ISO)
negative regulation of ubiquitin-dependent protein catabolic process  (ISO)
neurogenesis  (ISO)
neuron differentiation  (IBA)
neuron fate commitment  (ISO)
neuron fate determination  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of dermatome development  (ISO)
positive regulation of DNA-binding transcription factor activity  (ISO)
positive regulation of fibroblast proliferation  (ISO)
positive regulation of insulin-like growth factor receptor signaling pathway  (ISO)
positive regulation of lamellipodium assembly  (ISO)
positive regulation of Notch signaling pathway  (ISO)
positive regulation of protein phosphorylation  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of transcription, DNA-templated  (ISO)
response to wounding  (ISO)
signal transduction in response to DNA damage  (ISO)
Spemann organizer formation  (ISO)
spinal cord association neuron differentiation  (ISO)
T cell differentiation in thymus  (ISO)
ubiquitin-dependent SMAD protein catabolic process  (ISO)
Wnt signaling pathway  (ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:1300513   PMID:2202907   PMID:2205396   PMID:2534596   PMID:8555108   PMID:8710372   PMID:8848044   PMID:9160667   PMID:9192640   PMID:9356179   PMID:9473323   PMID:9505170  
PMID:9601103   PMID:9652750   PMID:9769173   PMID:10557084   PMID:10644691   PMID:10654605   PMID:10937998   PMID:11265645   PMID:11336703   PMID:11357136   PMID:11793365   PMID:11877374  
PMID:12121999   PMID:12154096   PMID:12937339   PMID:14641328   PMID:15035989   PMID:15064719   PMID:15121182   PMID:15143170   PMID:15265686   PMID:15282335   PMID:15454084   PMID:15574752  
PMID:15728361   PMID:15961523   PMID:16054034   PMID:16194878   PMID:16207730   PMID:16339193   PMID:16501043   PMID:16543246   PMID:16601693   PMID:17072303   PMID:17239604   PMID:17982423  
PMID:17988238   PMID:18004065   PMID:18094027   PMID:18347988   PMID:19348510   PMID:19594026   PMID:19734317   PMID:19756656   PMID:19778454   PMID:19847889   PMID:19931241   PMID:19951692  
PMID:20383322   PMID:20499363   PMID:21443457   PMID:21752258   PMID:21935365   PMID:22406377   PMID:23152495   PMID:23324743   PMID:23499309   PMID:23585476   PMID:24961246   PMID:26054493  
PMID:28177765   PMID:28733458   PMID:29152652   PMID:31356809   PMID:31886199  


Genomics

Comparative Map Data
Wnt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27129,938,604 - 129,942,651 (+)NCBI
Rnor_6.0 Ensembl7140,464,999 - 140,469,046 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07140,464,999 - 140,469,046 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X114,975,118 - 114,979,165 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47137,557,836 - 137,561,883 (+)NCBIRGSC3.4rn4RGSC3.4
Celera7126,427,473 - 126,431,520 (+)NCBICelera
Cytogenetic Map7q36NCBI
WNT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1248,978,322 - 48,982,620 (+)EnsemblGRCh38hg38GRCh38
GRCh381248,978,322 - 48,982,620 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371249,372,105 - 49,376,403 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361247,658,503 - 47,662,746 (+)NCBINCBI36hg18NCBI36
Build 341247,658,502 - 47,662,746NCBI
Celera1248,167,028 - 48,171,188 (+)NCBI
Cytogenetic Map12q13.12NCBI
HuRef1246,403,758 - 46,407,918 (+)NCBIHuRef
CHM1_11249,338,028 - 49,342,188 (+)NCBICHM1_1
Wnt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391598,687,738 - 98,691,711 (+)NCBIGRCm39mm39
GRCm39 Ensembl1598,687,738 - 98,691,718 (+)Ensembl
GRCm381598,789,857 - 98,793,830 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1598,789,857 - 98,793,837 (+)EnsemblGRCm38mm10GRCm38
MGSCv371598,620,288 - 98,624,261 (+)NCBIGRCm37mm9NCBIm37
MGSCv361598,617,891 - 98,621,864 (+)NCBImm8
Celera15100,939,306 - 100,943,279 (+)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1554.65NCBI
Wnt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555007,797,060 - 7,811,167 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555007,797,063 - 7,811,142 (+)NCBIChiLan1.0ChiLan1.0
WNT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11240,648,413 - 40,652,583 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1240,648,413 - 40,652,583 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01239,767,839 - 39,772,460 (-)NCBIMhudiblu_PPA_v0panPan3
WNT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1275,588,151 - 5,592,254 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl275,574,940 - 5,592,060 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2740,665,906 - 40,669,560 (+)NCBI
ROS_Cfam_1.0275,639,156 - 5,642,810 (-)NCBI
UMICH_Zoey_3.1275,603,082 - 5,606,734 (-)NCBI
UNSW_CanFamBas_1.0275,593,278 - 5,596,931 (-)NCBI
UU_Cfam_GSD_1.02741,058,211 - 41,061,867 (+)NCBI
Wnt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494566,379,465 - 66,383,960 (-)NCBI
SpeTri2.0NW_0049365126,781,001 - 6,785,358 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
WNT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl515,010,985 - 15,014,079 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1515,010,607 - 15,015,007 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2515,420,829 - 15,425,219 (+)NCBISscrofa10.2Sscrofa10.2susScr3
WNT1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11145,217,402 - 45,222,996 (+)NCBI
ChlSab1.1 Ensembl1145,219,027 - 45,222,017 (+)Ensembl
Wnt1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248163,209,605 - 3,212,969 (-)NCBI

Position Markers
D7Kyo2   No map positions available.
Wnt1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27129,940,800 - 129,941,417 (+)MAPPER
Rnor_6.07140,467,196 - 140,467,812NCBIRnor6.0
Rnor_5.0X114,977,315 - 114,977,931UniSTSRnor5.0
RGSC_v3.47137,560,033 - 137,560,649UniSTSRGSC3.4
Celera7126,429,670 - 126,430,286UniSTS
Cytogenetic Map7q35UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)781645773140745067Rat
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
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
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
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7129412003145729302Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:507
Count of miRNA genes:237
Interacting mature miRNAs:297
Transcripts:ENSRNOT00000019641, ENSRNOT00000067581
Prediction methods:Microtar, Miranda, Pita, Pita,Targetscan, 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

circulatory system nervous system reproductive system respiratory system
High
Medium
Low 31 2
Below cutoff 1 11 5 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000090156   ⟹   ENSRNOP00000071688
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7140,464,999 - 140,469,046 (+)Ensembl
RefSeq Acc Id: NM_001105714   ⟹   NP_001099184
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27129,938,604 - 129,942,651 (+)NCBI
Rnor_6.07140,464,999 - 140,469,046 (+)NCBI
Rnor_5.0X114,975,118 - 114,979,165 (+)NCBI
RGSC_v3.47137,557,836 - 137,561,883 (+)RGD
Celera7126,427,473 - 126,431,520 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001099184 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL87034 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001099184   ⟸   NM_001105714
- Peptide Label: precursor
- UniProtKB: D4A9J2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071688   ⟸   ENSRNOT00000090156

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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
X 114975521 114975522 C T snv WKY/Gcrc (KNAW), WKY/N (KNAW), DOB/Oda (KyushuU), WKY/NHsd (KNAW), WKY/NCrl (KNAW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 140465402 140465403 C T snv WKY/Gcrc (RGD), WKY/NCrl (RGD)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 137558239 137558240 C T snv WKY/Gcrc (ICL), WKY/NHsd (ICL), LCR/2Mco (UMich), LCR/1Mco (UMich), WKY/NCrl (ICL)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1597195 AgrOrtholog
Ensembl Genes ENSRNOG00000061818 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000071688 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000090156 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.30.2460.20 UniProtKB/TrEMBL
InterPro Wnt1 UniProtKB/TrEMBL
  Wnt_C UniProtKB/TrEMBL
  Wnt_grthfactor_CS UniProtKB/TrEMBL
  Wnt_SF UniProtKB/TrEMBL
KEGG Report rno:24881 UniProtKB/TrEMBL
NCBI Gene 24881 ENTREZGENE
PANTHER Wnt UniProtKB/TrEMBL
Pfam wnt UniProtKB/TrEMBL
PhenoGen Wnt1 PhenoGen
PRINTS WNT1PROTEIN UniProtKB/TrEMBL
  WNTPROTEIN UniProtKB/TrEMBL
PROSITE WNT1 UniProtKB/TrEMBL
SMART WNT1 UniProtKB/TrEMBL
UniProt D4A9J2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-29 Wnt1  Wnt family member 1  Wnt1  wingless-type MMTV integration site family, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-14 Wnt1  wingless-type MMTV integration site family, member 1  Wnt1  wingless-related MMTV integration site 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Wnt1  wingless-related MMTV integration site 1  Wnt1  wingless-type MMTV integration site family, member 1 (mapped)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-04-13 Wnt1  wingless-type MMTV integration site family, member 1 (mapped)  Wnt1_mapped  wingless-type MMTV integration site family, member 1 (mapped)  Data Merged 737654 APPROVED
2006-11-20 Wnt1  wingless-type MMTV integration site family, member 1 (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Wnt1_mapped  wingless-type MMTV integration site family, member 1 (mapped)  Wnt1  wingless-type MMTV integration site family, member 1  Symbol and Name updated 1556543 APPROVED
2003-04-09 Wnt1  wingless-type MMTV integration site family, member 1    Wingless-type MMTV integration site 1, homolog  Name updated 629478 APPROVED
2002-06-10 Wnt1  Wingless-type MMTV integration site 1, homolog      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_product predicted to be a member of the Wnt family of secreted glycoproteins which regulate cell proliferation, cell differentiation, and determination of cell fate 1300513