Sh3bp4 (SH3-domain binding protein 4) - Rat Genome Database

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Gene: Sh3bp4 (SH3-domain binding protein 4) Rattus norvegicus
Analyze
Symbol: Sh3bp4
Name: SH3-domain binding protein 4
RGD ID: 620219
Description: Predicted to enable GDP-dissociation inhibitor activity; identical protein binding activity; and small GTPase binding activity. Predicted to be involved in several processes, including negative regulation of GTPase activity; negative regulation of TOR signaling; and protein localization to lysosome. Predicted to be located in clathrin-coated pit; clathrin-coated vesicle; and nucleus. Predicted to be active in cytoplasm. Orthologous to human SH3BP4 (SH3 domain binding protein 4); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC100361116; MAGI; SH3 domain-binding protein 4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2989,660,156 - 89,739,163 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl989,660,156 - 89,739,163 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0996,210,750 - 96,288,903 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl996,210,750 - 96,288,903 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0995,916,238 - 95,994,391 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4988,227,341 - 88,243,397 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1988,432,108 - 88,448,166 (+)NCBI
Celera987,214,924 - 87,293,877 (+)NCBICelera
Cytogenetic Map9q35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Cloning, chromosomal localization, and characterization of cDNA from a novel gene, SH3BP4, expressed by human corneal fibroblasts. Dunlevy JR, etal., Genomics 1999 Dec 15;62(3):519-24.
2. 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.
3. Nuclear and plasma membrane localization of SH3BP4 in retinal pigment epithelial cells. Khanobdee K, etal., Mol Vis 2004 Dec 13;10:933-42.
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16325581   PMID:19056867   PMID:22575674   PMID:23274731  


Genomics

Comparative Map Data
Sh3bp4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2989,660,156 - 89,739,163 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl989,660,156 - 89,739,163 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0996,210,750 - 96,288,903 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl996,210,750 - 96,288,903 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0995,916,238 - 95,994,391 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4988,227,341 - 88,243,397 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1988,432,108 - 88,448,166 (+)NCBI
Celera987,214,924 - 87,293,877 (+)NCBICelera
Cytogenetic Map9q35NCBI
SH3BP4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382234,952,017 - 235,055,714 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2234,952,017 - 235,055,714 (+)EnsemblGRCh38hg38GRCh38
GRCh372235,860,661 - 235,964,358 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362235,525,367 - 235,629,097 (+)NCBINCBI36Build 36hg18NCBI36
Build 342235,642,685 - 235,746,356NCBI
Celera2229,577,847 - 229,681,460 (+)NCBICelera
Cytogenetic Map2q37.2NCBI
HuRef2227,700,099 - 227,760,480 (+)NCBIHuRef
CHM1_12235,866,502 - 235,970,051 (+)NCBICHM1_1
T2T-CHM13v2.02235,441,072 - 235,544,683 (+)NCBIT2T-CHM13v2.0
Sh3bp4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39188,998,061 - 89,082,809 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl188,998,137 - 89,082,790 (+)EnsemblGRCm39 Ensembl
GRCm38189,070,333 - 89,155,087 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl189,070,415 - 89,155,068 (+)EnsemblGRCm38mm10GRCm38
MGSCv37190,967,037 - 91,050,368 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36190,901,633 - 90,984,964 (+)NCBIMGSCv36mm8
Celera192,032,349 - 92,112,519 (+)NCBICelera
Cytogenetic Map1DNCBI
Sh3bp4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554531,387,882 - 1,443,353 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554531,387,954 - 1,425,268 (-)NCBIChiLan1.0ChiLan1.0
SH3BP4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B241,089,624 - 241,149,524 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B241,089,624 - 241,149,524 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B122,179,431 - 122,284,430 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
SH3BP4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12546,049,631 - 46,133,065 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2546,049,475 - 46,155,519 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2546,549,382 - 46,632,411 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02546,399,637 - 46,483,446 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2546,399,592 - 46,483,436 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12546,308,012 - 46,390,957 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02546,101,835 - 46,185,151 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02546,330,339 - 46,414,116 (+)NCBIUU_Cfam_GSD_1.0
Sh3bp4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303188,215,750 - 188,245,868 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365252,693,828 - 2,757,480 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SH3BP4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15135,003,511 - 135,094,797 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115135,003,501 - 135,094,801 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SH3BP4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110120,974,110 - 121,075,584 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10121,054,665 - 121,073,708 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604078,392,522 - 78,496,002 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sh3bp4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248471,044,831 - 1,078,984 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248471,007,940 - 1,078,882 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
D9Got114  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2989,722,429 - 89,722,567 (+)MAPPERmRatBN7.2
Rnor_6.0996,272,170 - 96,272,307NCBIRnor6.0
Rnor_5.0995,977,658 - 95,977,795UniSTSRnor5.0
RGSC_v3.4988,227,958 - 88,228,096RGDRGSC3.4
RGSC_v3.4988,227,959 - 88,228,096UniSTSRGSC3.4
RGSC_v3.1988,432,727 - 88,432,865RGD
Celera987,277,144 - 87,277,281UniSTS
RH 2.0 Map9908.1RGD
Cytogenetic Map9q35UniSTS
RH132817  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2989,738,905 - 89,739,085 (+)MAPPERmRatBN7.2
Rnor_6.0996,288,646 - 96,288,825NCBIRnor6.0
Rnor_5.0995,994,134 - 95,994,313UniSTSRnor5.0
RGSC_v3.4988,244,435 - 88,244,614UniSTSRGSC3.4
Celera987,293,620 - 87,293,799UniSTS
Cytogenetic Map9q35UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1578757Pur6Proteinuria QTL 63.30.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)97927151191616855Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)97927151191616855Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)97927151191616855Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)98636963192058970Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:267
Count of miRNA genes:161
Interacting mature miRNAs:173
Transcripts:ENSRNOT00000026312
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 34 2 2 2 69 33 32 11
Low 2 9 55 39 19 39 8 11 5 2 9 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026312   ⟹   ENSRNOP00000026312
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl989,660,156 - 89,739,163 (+)Ensembl
Rnor_6.0 Ensembl996,210,750 - 96,288,903 (+)Ensembl
RefSeq Acc Id: NM_022693   ⟹   NP_073184
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2989,660,156 - 89,739,163 (+)NCBI
Rnor_6.0996,210,750 - 96,288,903 (+)NCBI
Rnor_5.0995,916,238 - 95,994,391 (+)NCBI
RGSC_v3.4988,227,341 - 88,243,397 (+)RGD
Celera987,214,924 - 87,293,877 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008767298   ⟹   XP_008765520
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2989,660,435 - 89,739,163 (+)NCBI
Rnor_6.0996,210,932 - 96,288,895 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039084182   ⟹   XP_038940110
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2989,660,176 - 89,739,163 (+)NCBI
RefSeq Acc Id: XM_039084183   ⟹   XP_038940111
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2989,660,430 - 89,739,163 (+)NCBI
RefSeq Acc Id: XM_039084184   ⟹   XP_038940112
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2989,709,407 - 89,739,163 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_073184   ⟸   NM_022693
- UniProtKB: G3V8J0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008765520   ⟸   XM_008767298
- Peptide Label: isoform X2
- UniProtKB: G3V8J0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000026312   ⟸   ENSRNOT00000026312
RefSeq Acc Id: XP_038940110   ⟸   XM_039084182
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038940111   ⟸   XM_039084183
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038940112   ⟸   XM_039084184
- Peptide Label: isoform X1
Protein Domains
SH3   ZU5

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JJS5-F1-model_v2 AlphaFold Q9JJS5 1-961 view protein structure

Transcriptome

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

Promoters
RGD ID:13696848
Promoter ID:EPDNEW_R7372
Type:initiation region
Name:Sh3bp4_1
Description:SH3-domain binding protein 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0996,210,743 - 96,210,803EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
9 96278252 96278253 G C snv MR/N (2020)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
9 89728512 89728513 G C snv MR/N (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620219 AgrOrtholog
BioCyc Gene G2FUF-26782 BioCyc
Ensembl Genes ENSRNOG00000019316 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000026312 ENTREZGENE
  ENSRNOP00000026312.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026312 ENTREZGENE
  ENSRNOT00000026312.5 UniProtKB/TrEMBL
InterPro SH3-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3BP4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3BP4_SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZU5_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64634 UniProtKB/TrEMBL
NCBI Gene 64634 ENTREZGENE
PANTHER PTHR15603:SF3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SH3_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZU5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sh3bp4 PhenoGen
PROSITE SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZU5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50044 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt G3V8J0 ENTREZGENE, UniProtKB/TrEMBL
  Q9JJS5 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-04-17 Sh3bp4  SH3-domain binding protein 4  LOC100361116  SH3-domain binding protein 4  Data Merged 737654 PROVISIONAL
2010-05-05 LOC100361116  SH3-domain binding protein 4      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Sh3bp4  SH3-domain binding protein 4      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Sh3bp4  SH3-domain binding protein 4      Symbol and Name status set to provisional 70820 PROVISIONAL