Smurf1 (SMAD specific E3 ubiquitin protein ligase 1) - Rat Genome Database

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Gene: Smurf1 (SMAD specific E3 ubiquitin protein ligase 1) Rattus norvegicus
Analyze
Symbol: Smurf1
Name: SMAD specific E3 ubiquitin protein ligase 1
RGD ID: 1594738
Description: Predicted to have I-SMAD binding activity; R-SMAD binding activity; and ubiquitin protein ligase activity. Predicted to be involved in several processes, including autophagosome assembly; negative regulation of transmembrane receptor protein serine/threonine kinase signaling pathway; and ubiquitin-dependent protein catabolic process. Localizes to axon and neuronal cell body. Predicted to colocalize with mitochondrion. Orthologous to human SMURF1 (SMAD specific E3 ubiquitin protein ligase 1); PARTICIPATES IN Bone morphogenetic proteins signaling pathway; transforming growth factor-beta Smad dependent signaling pathway; INTERACTS WITH 1,3-dinitrobenzene; 17beta-estradiol; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: E3 ubiquitin-protein ligase SMURF1; LOC690516; RGD1309707; similar to Smad ubiquitination regulatory factor 1 isoform 2
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
mRatBN7.2129,635,009 - 9,726,520 (+)NCBI
Rnor_6.0 Ensembl1211,407,213 - 11,526,465 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01211,433,815 - 11,526,465 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01213,499,018 - 13,591,105 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4129,950,304 - 10,042,391 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1211,439,779 - 11,530,606 (+)NCBICelera
Cytogenetic Map12p11NCBI
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:10458166   PMID:11278251   PMID:12151385   PMID:15820682   PMID:19056867   PMID:19937093   PMID:21454619   PMID:21572392   PMID:22020285   PMID:23999003   PMID:25901863   PMID:27214554  
PMID:28341855   PMID:28940129   PMID:29016730   PMID:30158054   PMID:31778769   PMID:32871042  


Genomics

Comparative Map Data
Smurf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2129,635,009 - 9,726,520 (+)NCBI
Rnor_6.0 Ensembl1211,407,213 - 11,526,465 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01211,433,815 - 11,526,465 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01213,499,018 - 13,591,105 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4129,950,304 - 10,042,391 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1211,439,779 - 11,530,606 (+)NCBICelera
Cytogenetic Map12p11NCBI
SMURF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl799,027,440 - 99,144,108 (-)EnsemblGRCh38hg38GRCh38
GRCh38799,027,435 - 99,144,118 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37798,625,063 - 98,741,731 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36798,463,000 - 98,579,659 (-)NCBINCBI36hg18NCBI36
Celera793,353,908 - 93,471,364 (-)NCBI
Cytogenetic Map7q22.1NCBI
HuRef793,257,804 - 93,374,432 (-)NCBIHuRef
CHM1_1798,555,482 - 98,672,053 (-)NCBICHM1_1
CRA_TCAGchr7v2797,981,091 - 98,097,765 (-)NCBI
Smurf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395144,813,305 - 144,902,657 (-)NCBIGRCm39mm39
GRCm39 Ensembl5144,813,305 - 144,902,657 (-)Ensembl
GRCm385144,876,495 - 144,965,899 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5144,876,495 - 144,965,847 (-)EnsemblGRCm38mm10GRCm38
MGSCv375145,637,364 - 145,726,699 (-)NCBIGRCm37mm9NCBIm37
MGSCv365145,130,022 - 145,219,357 (-)NCBImm8
MGSCv365143,961,853 - 144,051,632 (-)NCBImm8
Celera5141,867,627 - 141,904,898 (-)NCBICelera
Cytogenetic Map5G2NCBI
Smurf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546014,774,545 - 14,802,879 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495546014,774,545 - 14,860,783 (-)NCBIChiLan1.0ChiLan1.0
SMURF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17104,500,965 - 104,568,046 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7104,500,965 - 104,568,046 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0790,995,923 - 91,112,240 (-)NCBIMhudiblu_PPA_v0panPan3
SMURF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1610,385,781 - 10,498,071 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl610,385,779 - 10,494,922 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha612,010,745 - 12,124,123 (+)NCBI
ROS_Cfam_1.0610,384,720 - 10,498,106 (+)NCBI
UMICH_Zoey_3.1610,254,596 - 10,367,952 (+)NCBI
UNSW_CanFamBas_1.0610,233,259 - 10,346,407 (+)NCBI
UU_Cfam_GSD_1.0610,466,893 - 10,580,346 (+)NCBI
Smurf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344138,531,835 - 138,563,396 (+)NCBI
SpeTri2.0NW_0049367501,381,864 - 1,406,736 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMURF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl36,037,737 - 6,142,576 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.136,037,732 - 6,142,569 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.236,098,677 - 6,149,341 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SMURF1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12814,019,733 - 14,141,588 (+)NCBI
ChlSab1.1 Ensembl2814,019,968 - 14,141,795 (+)Ensembl
Vero_WHO_p1.0NW_0236660702,154,820 - 2,276,911 (-)NCBI
Smurf1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474032,480,138 - 32,615,436 (-)NCBI

Position Markers
RH142403  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2129,726,080 - 9,726,238 (+)MAPPER
Rnor_6.01211,526,027 - 11,526,184NCBIRnor6.0
Rnor_5.01213,590,667 - 13,590,824UniSTSRnor5.0
RGSC_v3.41210,041,953 - 10,042,110UniSTSRGSC3.4
Celera1211,530,168 - 11,530,325UniSTS
RH 3.4 Map12144.41UniSTS
Cytogenetic Map12p11UniSTS
BE096092  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2129,653,529 - 9,653,679 (+)MAPPER
Rnor_6.01211,453,456 - 11,453,605NCBIRnor6.0
Rnor_6.01211,425,771 - 11,425,920NCBIRnor6.0
Rnor_5.01213,518,096 - 13,518,245UniSTSRnor5.0
Rnor_5.01213,490,974 - 13,491,123UniSTSRnor5.0
RGSC_v3.4129,969,383 - 9,969,532UniSTSRGSC3.4
Celera1211,457,969 - 11,458,118UniSTS
RH 3.4 Map12119.7UniSTS
Cytogenetic Map12p11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)12111765163Rat
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12122650917Rat
10450854Stl34Serum triglyceride level QTL 343.50.05blood LDL triglyceride amount (VT:0010699)blood lipoprotein triglyceride level (CMO:0002685)12122853017Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12123035872Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123758197Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12130749723Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12136919844Rat
7387292Kidm42Kidney mass QTL 423.030.0004kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)12138334225Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)1215081045150810Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1215081045150810Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)1215081045150810Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)1215081045150810Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)1249257845492578Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12247568747475687Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12251344247513442Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12251344247513442Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12421005149210051Rat
724526Uae3Urinary albumin excretion QTL 34.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)12540609412355490Rat
1600391Edcs2Endometrial carcinoma susceptibility QTL23.50.01uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)12824960820590080Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12895459327911196Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6922362652716770Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922362652716770Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922362652716770Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922363052716770Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12978983452716770Rat
2293086Iddm30Insulin dependent diabetes mellitus QTL 303.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121017588931975590Rat
61331Eau2Experimental allergic uveoretinitis QTL 20.0005uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)121025689031723732Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:891
Count of miRNA genes:300
Interacting mature miRNAs:403
Transcripts:ENSRNOT00000031901
Prediction methods:Microtar, Miranda, 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 3 32 14 6 14 6 72 28 41 11
Low 11 43 35 5 35 8 11 2 7 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000031901   ⟹   ENSRNOP00000031927
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1211,433,813 - 11,523,820 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082989   ⟹   ENSRNOP00000071653
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1211,407,213 - 11,526,465 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084577   ⟹   ENSRNOP00000073635
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1211,433,819 - 11,523,771 (+)Ensembl
RefSeq Acc Id: NM_001109598   ⟹   NP_001103068
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2129,635,309 - 9,726,519 (+)NCBI
Rnor_6.01211,433,815 - 11,526,465 (+)NCBI
Rnor_5.01213,499,018 - 13,591,105 (+)NCBI
RGSC_v3.4129,950,304 - 10,042,391 (+)ENTREZGENE
Celera1211,439,779 - 11,530,606 (+)ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006248882   ⟹   XP_006248944
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2129,635,009 - 9,726,520 (+)NCBI
Rnor_6.01211,433,819 - 11,526,465 (+)NCBI
Rnor_5.01213,499,018 - 13,591,105 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769002   ⟹   XP_008767224
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2129,635,009 - 9,726,520 (+)NCBI
Rnor_6.01211,433,819 - 11,526,465 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598462   ⟹   XP_017453951
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2129,635,009 - 9,726,520 (+)NCBI
Rnor_6.01211,433,819 - 11,526,465 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039089789   ⟹   XP_038945717
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2129,635,009 - 9,726,520 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001103068   ⟸   NM_001109598
- UniProtKB: D3ZCF5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248944   ⟸   XM_006248882
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008767224   ⟸   XM_008769002
- Peptide Label: isoform X3
- UniProtKB: A0A0G2K612 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017453951   ⟸   XM_017598462
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000071653   ⟸   ENSRNOT00000082989
RefSeq Acc Id: ENSRNOP00000073635   ⟸   ENSRNOT00000084577
RefSeq Acc Id: ENSRNOP00000031927   ⟸   ENSRNOT00000031901
RefSeq Acc Id: XP_038945717   ⟸   XM_039089789
- Peptide Label: isoform X4
Protein Domains
C2   HECT   WW

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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1594738 AgrOrtholog
Ensembl Genes ENSRNOG00000000999 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000031927 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000071653 UniProtKB/TrEMBL
  ENSRNOP00000073635 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031901 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000082989 UniProtKB/TrEMBL
  ENSRNOT00000084577 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.150 UniProtKB/TrEMBL
InterPro C2_Ca-dep UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/TrEMBL
  E3_ub_ligase_SMURF1 UniProtKB/TrEMBL
  HECT UniProtKB/TrEMBL
  Hect_E3_ubiquitin_ligase UniProtKB/TrEMBL
  WW_dom_sf UniProtKB/TrEMBL
  WW_Rsp5_WWP UniProtKB/TrEMBL
KEGG Report rno:690516 UniProtKB/TrEMBL
NCBI Gene 690516 ENTREZGENE
Pfam HECT UniProtKB/TrEMBL
  PF00168 UniProtKB/TrEMBL
  PF00397 UniProtKB/TrEMBL
PhenoGen Smurf1 PhenoGen
PIRSF E3_ub_ligase_SMURF1 UniProtKB/TrEMBL
PROSITE HECT UniProtKB/TrEMBL
  PS50004 UniProtKB/TrEMBL
  WW_DOMAIN_1 UniProtKB/TrEMBL
  WW_DOMAIN_2 UniProtKB/TrEMBL
SMART HECTc UniProtKB/TrEMBL
  SM00239 UniProtKB/TrEMBL
  SM00456 UniProtKB/TrEMBL
Superfamily-SCOP HECT UniProtKB/TrEMBL
  WW_Rsp5_WWP UniProtKB/TrEMBL
UniProt A0A0G2K612 ENTREZGENE, UniProtKB/TrEMBL
  D3ZCF5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-04-23 Smurf1  SMAD specific E3 ubiquitin protein ligase 1  LOC690516  similar to Smad ubiquitination regulatory factor 1 isoform 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-07-08 LOC690516  similar to Smad ubiquitination regulatory factor 1 isoform 2  RGD1309707  similar to RIKEN cDNA 4930431E10   Data Merged 1643240 APPROVED
2008-04-30 RGD1309707  similar to RIKEN cDNA 4930431E10   RGD1309707_predicted  similar to RIKEN cDNA 4930431E10 (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-20 LOC690516  similar to Smad ubiquitination regulatory factor 1 isoform 2      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 RGD1309707_predicted  similar to RIKEN cDNA 4930431E10 (predicted)  LOC288469_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC288469_predicted  similar to RIKEN cDNA 4930431E10 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL