Sh3rf3 (SH3 domain containing ring finger 3) - Rat Genome Database

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Gene: Sh3rf3 (SH3 domain containing ring finger 3) Rattus norvegicus
Analyze
Symbol: Sh3rf3
Name: SH3 domain containing ring finger 3
RGD ID: 1589772
Description: Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in positive regulation of JNK cascade; positive regulation of proteasomal ubiquitin-dependent protein catabolic process; and protein autoubiquitination. Orthologous to human SH3RF3 (SH3 domain containing ring finger 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: E3 ubiquitin-protein ligase SH3RF3; LOC294557; SH3 domain-containing RING finger protein 3; SH3 multiple domains 4; Sh3md4; similar to SH3 domain containing ring finger 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82027,306,937 - 27,642,315 (+)NCBIGRCr8
mRatBN7.22026,765,278 - 27,099,261 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2026,765,015 - 27,099,257 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02028,355,671 - 28,720,020 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2028,572,242 - 28,717,243 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02030,292,511 - 30,527,551 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2028,211,679 - 28,542,578 (+)NCBICelera
Cytogenetic Map20q11NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:20696164   PMID:36694058  


Genomics

Comparative Map Data
Sh3rf3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82027,306,937 - 27,642,315 (+)NCBIGRCr8
mRatBN7.22026,765,278 - 27,099,261 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2026,765,015 - 27,099,257 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02028,355,671 - 28,720,020 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2028,572,242 - 28,717,243 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02030,292,511 - 30,527,551 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2028,211,679 - 28,542,578 (+)NCBICelera
Cytogenetic Map20q11NCBI
SH3RF3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382109,129,205 - 109,504,634 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2109,129,205 - 109,504,634 (+)EnsemblGRCh38hg38GRCh38
GRCh372109,745,661 - 110,262,211 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362109,112,429 - 109,432,377 (+)NCBINCBI36Build 36hg18NCBI36
Build 362109,616,360 - 109,619,489 (+)NCBINCBI36Build 36hg18NCBI36
Celera2104,055,768 - 104,430,967 (+)NCBICelera
Cytogenetic Map2q13NCBI
HuRef2103,343,871 - 103,705,816 (+)NCBIHuRef
HuRef2103,707,988 - 103,718,182 (+)NCBIHuRef
CHM1_12110,256,805 - 110,266,403 (+)NCBICHM1_1
CHM1_12109,750,291 - 110,111,614 (+)NCBICHM1_1
T2T-CHM13v2.02109,589,723 - 109,965,692 (+)NCBIT2T-CHM13v2.0
Sh3rf3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391058,649,181 - 58,974,738 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1058,649,181 - 58,974,738 (+)EnsemblGRCm39 Ensembl
GRCm381058,811,908 - 59,138,916 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1058,813,359 - 59,138,916 (+)EnsemblGRCm38mm10GRCm38
MGSCv371058,276,107 - 58,601,664 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361058,379,278 - 58,534,271 (+)NCBIMGSCv36mm8
Celera1059,913,446 - 60,238,898 (+)NCBICelera
Cytogenetic Map10B4NCBI
cM Map1029.41NCBI
Sh3rf3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495547012,539,851 - 12,614,804 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495547012,446,604 - 12,615,689 (+)NCBIChiLan1.0ChiLan1.0
SH3RF3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21218,190,518 - 18,564,982 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A18,193,284 - 18,567,272 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A92,137,951 - 92,519,627 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A111,066,794 - 111,222,876 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A110,848,452 - 111,219,915 (+)Ensemblpanpan1.1panPan2
SH3RF3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11034,374,376 - 34,730,548 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1034,376,326 - 34,730,657 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1034,298,608 - 34,653,751 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01035,228,013 - 35,582,478 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1035,221,453 - 35,582,954 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11034,957,269 - 35,312,019 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01035,238,124 - 35,595,007 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01035,429,247 - 35,783,154 (-)NCBIUU_Cfam_GSD_1.0
Sh3rf3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629291,438,829 - 91,570,903 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936829826,762 - 956,056 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936829714,518 - 914,894 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SH3RF3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl347,133,532 - 47,339,541 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1347,128,448 - 47,339,569 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2349,215,802 - 49,373,969 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SH3RF3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11412,657,402 - 13,030,467 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1412,871,670 - 13,030,464 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660806,664,166 - 7,043,832 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sh3rf3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474912,233,658 - 12,318,809 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474912,109,084 - 12,319,732 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sh3rf3
2346 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:120
Count of miRNA genes:88
Interacting mature miRNAs:94
Transcripts:ENSRNOT00000072485, ENSRNOT00000074799
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201761783247606836Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202510672254435887Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)201919072154435887Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202520973454435887Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202510672254435887Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201769755054435887Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202510672254435887Rat

Markers in Region
AFM324zg9  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2595,182,716 - 95,183,352 (+)MAPPERmRatBN7.2
mRatBN7.22026,841,354 - 26,841,555 (+)MAPPERmRatBN7.2
Rnor_6.02028,463,127 - 28,463,327NCBIRnor6.0
Rnor_6.0598,291,978 - 98,292,613NCBIRnor6.0
Rnor_5.05102,332,127 - 102,332,762UniSTSRnor5.0
Rnor_5.02030,271,809 - 30,272,009UniSTSRnor5.0
RGSC_v3.4599,419,206 - 99,419,841UniSTSRGSC3.4
Celera2028,285,876 - 28,286,058UniSTS
Celera593,755,966 - 93,756,601UniSTS
Cytogenetic Map20q13UniSTS
G46449  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22027,092,002 - 27,092,123 (+)MAPPERmRatBN7.2
Rnor_6.02028,712,760 - 28,712,880NCBIRnor6.0
Rnor_5.02030,520,291 - 30,520,411UniSTSRnor5.0
Celera2028,535,324 - 28,535,438UniSTS
Cytogenetic Map20q13UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 84 83 52 25 52 6 210 97 93 44 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000072485   ⟹   ENSRNOP00000064987
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2026,765,015 - 27,099,257 (+)Ensembl
Rnor_6.0 Ensembl2028,572,242 - 28,717,243 (+)Ensembl
RefSeq Acc Id: XM_017601803   ⟹   XP_017457292
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,306,937 - 27,642,315 (+)NCBI
mRatBN7.22026,765,278 - 27,099,261 (+)NCBI
Rnor_6.02028,355,671 - 28,720,020 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601804   ⟹   XP_017457293
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,488,772 - 27,642,315 (+)NCBI
mRatBN7.22026,948,768 - 27,099,261 (+)NCBI
Rnor_6.02028,568,631 - 28,720,020 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039099198   ⟹   XP_038955126
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,306,937 - 27,642,315 (+)NCBI
mRatBN7.22026,765,278 - 27,099,261 (+)NCBI
RefSeq Acc Id: XM_039099199   ⟹   XP_038955127
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,308,156 - 27,589,693 (+)NCBI
mRatBN7.22026,765,278 - 27,046,635 (+)NCBI
RefSeq Acc Id: XM_039099200   ⟹   XP_038955128
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,568,513 - 27,642,315 (+)NCBI
mRatBN7.22027,023,945 - 27,099,261 (+)NCBI
RefSeq Acc Id: XM_039099201   ⟹   XP_038955129
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,568,518 - 27,642,315 (+)NCBI
mRatBN7.22027,027,159 - 27,099,261 (+)NCBI
RefSeq Acc Id: XM_039099202   ⟹   XP_038955130
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,568,518 - 27,642,315 (+)NCBI
mRatBN7.22027,026,372 - 27,099,261 (+)NCBI
RefSeq Acc Id: XM_063279663   ⟹   XP_063135733
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,306,937 - 27,601,978 (+)NCBI
RefSeq Acc Id: XR_010061102
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,308,156 - 27,589,692 (+)NCBI
RefSeq Acc Id: XP_017457292   ⟸   XM_017601803
- Peptide Label: isoform X1
- UniProtKB: M0R6D9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457293   ⟸   XM_017601804
- Peptide Label: isoform X3
- Sequence:
Ensembl Acc Id: ENSRNOP00000064987   ⟸   ENSRNOT00000072485
RefSeq Acc Id: XP_038955126   ⟸   XM_039099198
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038955127   ⟸   XM_039099199
- Peptide Label: isoform X5
- UniProtKB: A6K3U1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955128   ⟸   XM_039099200
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038955130   ⟸   XM_039099202
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038955129   ⟸   XM_039099201
- Peptide Label: isoform X7
RefSeq Acc Id: XP_063135733   ⟸   XM_063279663
- Peptide Label: isoform X4
Protein Domains
RING-type   SH3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R6D9-F1-model_v2 AlphaFold M0R6D9 1-694 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589772 AgrOrtholog
BioCyc Gene G2FUF-3780 BioCyc
Ensembl Genes ENSRNOG00000046791 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000072485.4 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  SH3 Domains UniProtKB/TrEMBL
InterPro Endophilin_SH3RF UniProtKB/TrEMBL
  SH3-like_dom UniProtKB/TrEMBL
  SH3_domain UniProtKB/TrEMBL
  SH3RF1/SH3RF3_SH3_4 UniProtKB/TrEMBL
  SH3RF3_RING-HC_Zfn UniProtKB/TrEMBL
  Znf-RING_euk UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
KEGG Report rno:294557 UniProtKB/TrEMBL
NCBI Gene 294557 ENTREZGENE
PANTHER E3 UBIQUITIN-PROTEIN LIGASE SH3RF3 UniProtKB/TrEMBL
  SH3 DOMAIN-CONTAINING UniProtKB/TrEMBL
Pfam SH3_1 UniProtKB/TrEMBL
  SH3_9 UniProtKB/TrEMBL
  zf-RING_UBOX UniProtKB/TrEMBL
PhenoGen Sh3rf3 PhenoGen
PRINTS P67PHOX UniProtKB/TrEMBL
  SH3DOMAIN UniProtKB/TrEMBL
PROSITE SH3 UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000046791 RatGTEx
SMART RING UniProtKB/TrEMBL
  SH3 UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
  SH3 UniProtKB/TrEMBL
UniProt A6K3U1 ENTREZGENE, UniProtKB/TrEMBL
  M0R6D9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-09-20 Sh3rf3  SH3 domain containing ring finger 3  Sh3md4  SH3 multiple domains 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Sh3md4  SH3 multiple domains 4  LOC294557  similar to SH3 domain containing ring finger 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC294557  similar to SH3 domain containing ring finger 1      Symbol and Name status set to provisional 70820 PROVISIONAL