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

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Gene: Sh3bp4 (SH3-domain binding protein 4) Mus musculus
Analyze
Symbol: Sh3bp4
Name: SH3-domain binding protein 4
RGD ID: 731486
MGI Page MGI
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 act upstream of or within endocytosis. Predicted to be located in clathrin-coated pit; cytoplasmic vesicle; and nucleus. Predicted to be active in cytoplasm. Is expressed in cerebral cortex marginal layer and olfactory cortex marginal layer. Orthologous to human SH3BP4 (SH3 domain binding protein 4); INTERACTS WITH 1,2-dimethylhydrazine; 4,4'-diaminodiphenylmethane; 4-hydroxyphenyl retinamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: AI594717; AW227605; BOG2; BOG25; SH3 domain-binding protein 4
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39188,998,061 - 89,082,809 (+)NCBIGRCm39mm39
GRCm39 Ensembl188,998,137 - 89,082,790 (+)Ensembl
GRCm38189,070,333 - 89,155,087 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl189,070,415 - 89,155,068 (+)EnsemblGRCm38mm10GRCm38
MGSCv37190,967,037 - 91,050,368 (+)NCBIGRCm37mm9NCBIm37
MGSCv36190,901,633 - 90,984,964 (+)NCBImm8
Celera192,032,349 - 92,112,519 (+)NCBICelera
Cytogenetic Map1DNCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:10349636   PMID:10512203   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12477932   PMID:12904583   PMID:14610273   PMID:15489334   PMID:15782199   PMID:15840001  
PMID:16141072   PMID:16141073   PMID:17967808   PMID:18799693   PMID:19122209   PMID:21267068   PMID:21677750   PMID:21873635   PMID:22575674   PMID:23604909   PMID:24457600   PMID:30811977  
PMID:32325033  


Genomics

Comparative Map Data
Sh3bp4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39188,998,061 - 89,082,809 (+)NCBIGRCm39mm39
GRCm39 Ensembl188,998,137 - 89,082,790 (+)Ensembl
GRCm38189,070,333 - 89,155,087 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl189,070,415 - 89,155,068 (+)EnsemblGRCm38mm10GRCm38
MGSCv37190,967,037 - 91,050,368 (+)NCBIGRCm37mm9NCBIm37
MGSCv36190,901,633 - 90,984,964 (+)NCBImm8
Celera192,032,349 - 92,112,519 (+)NCBICelera
Cytogenetic Map1DNCBI
SH3BP4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2234,952,017 - 235,055,714 (+)EnsemblGRCh38hg38GRCh38
GRCh382234,952,017 - 235,055,714 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372235,860,661 - 235,964,358 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362235,525,367 - 235,629,097 (+)NCBINCBI36hg18NCBI36
Build 342235,642,685 - 235,746,356NCBI
Celera2229,577,847 - 229,681,460 (+)NCBI
Cytogenetic Map2q37.2NCBI
HuRef2227,700,099 - 227,760,480 (+)NCBIHuRef
CHM1_12235,866,502 - 235,970,051 (+)NCBICHM1_1
Sh3bp4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2989,660,156 - 89,739,163 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl989,660,156 - 89,739,163 (+)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 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1988,432,108 - 88,448,166 (+)NCBI
Celera987,214,924 - 87,293,877 (+)NCBICelera
Cytogenetic Map9q35NCBI
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_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 (+)NCBI
ROS_Cfam_1.02546,399,637 - 46,483,446 (+)NCBI
UMICH_Zoey_3.12546,308,012 - 46,390,957 (+)NCBI
UNSW_CanFamBas_1.02546,101,835 - 46,185,151 (+)NCBI
UU_Cfam_GSD_1.02546,330,339 - 46,414,116 (+)NCBI
Sh3bp4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303188,215,750 - 188,245,868 (+)NCBI
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 - 135,106,622 (+)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 (+)NCBI
ChlSab1.1 Ensembl10121,054,665 - 121,073,708 (+)Ensembl
Vero_WHO_p1.0NW_02366604078,392,522 - 78,496,002 (-)NCBI
Sh3bp4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248471,007,940 - 1,078,882 (+)NCBI

Position Markers
UniSTS:234170  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38189,153,430 - 89,153,639UniSTSGRCm38
GRCm38189,153,408 - 89,153,639UniSTSGRCm38
MGSCv37191,049,983 - 91,050,214UniSTSGRCm37
MGSCv37191,050,005 - 91,050,214UniSTSGRCm37
Celera192,112,156 - 92,112,365UniSTS
Celera192,112,134 - 92,112,365UniSTS
Cytogenetic Map1DUniSTS
AI594717  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38189,153,549 - 89,153,638UniSTSGRCm38
MGSCv37191,050,124 - 91,050,213UniSTSGRCm37
Celera192,112,275 - 92,112,364UniSTS
Cytogenetic Map1DUniSTS
Whitehead/MRC_RH11293.93UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
13824984Twq5_mtestis weight QTL 5 (mouse)13000000185000000Mouse
1357753Kidq2_mkidney weight QTL 2 (mouse)Not determined134721057150318120Mouse
1357488Splq3_mspleen weight QTL 3 (mouse)Not determined134721057150318120Mouse
1558860W10q7_mweight 10 weeks QTL 7 (mouse)Not determined134721057150318120Mouse
1357721Sle17_msystematic lupus erythematosus susceptibility 17 (mouse)Not determined139093727126517573Mouse
1301722Cia9_mcollagen induced arthritis QTL 9 (mouse)Not determined145744740189571420Mouse
4142291Aec2_mautoimmune exocrinopathy 2 (mouse)Not determined52418578182423027Mouse
1357741Nidd5k_mNidd5 on KK-A<y> (mouse)Not determined15593578989935898Mouse
1357505Vtbt1_mvertebral trabecular bone trait 1 (mouse)Not determined15622705590227201Mouse
4142467Wbcq1_mwhite blood cell quantitative locus 1 (mouse)Not determined15622705590227201Mouse
1301933Insq6_minsulin QTL 6 (mouse)Not determined15668776390687918Mouse
1558717Ses1a_msalmonella enteritidis susceptibility 1a (mouse)Not determined15668776390687918Mouse
14746998Mancz1_mmandible centroid size 1 (mouse)15790219291902192Mouse
14747009Manh49_mmandible shape 49 (mouse)15790219291902192Mouse
1300746Skl1_mskeletal size (tail length) 1 (mouse)Not determined15795281891952921Mouse
1357679Egrm1_mearly growth rate, maternal effect 1 (mouse)Not determined15795281891952921Mouse
1301162Skull1_mskull morphology 1 (mouse)Not determined15795281891952921Mouse
1301444Alcw5_malcohol withdrawal 5 (mouse)Not determined15857254792572799Mouse
1301667Lxw5_mlupus BXSB x NZW 5 (mouse)Not determined15857254792572799Mouse
1301748Abbp1_mA/J and C57BL/6 blood pressure 1 (mouse)Not determined162907596120601949Mouse
10412185Hcs9_mhepatocarcinogenesis susceptibility 9 (mouse)Not determined163815531189571420Mouse
1300841Ssial1_msusceptibility to sialadenitis 1 (mouse)Not determined163880843153681816Mouse
27095918Ulnl1_mulna length 1, 5 week (mouse)167300000129800000Mouse
1302146Cocrb1_mcocaine related behavior 1 (mouse)Not determined170205811104211835Mouse
1300976Bmd19_mbone mineral density 19 (mouse)Not determined173227055108910684Mouse
4142394Mssq1_mmandible size and shape QTL 1 (mouse)Not determined73687970107688108Mouse
1301304Hrq3_mheart rate quantitative locus 3 (mouse)Not determined173687970107688108Mouse
1300989Lrdg1_mlight induced retinal degeneration 1 (mouse)Not determined173716016147249632Mouse
4141914Gcsfis_mG-CSF induced splenomegaly (mouse)Not determined74477076148839837Mouse
1357847Jckm2_mjuvenile cystic kidney modifier 2 (mouse)Not determined174952818133363199Mouse
1300821Lore1_mloss of righting induced by ethanol 1 (mouse)Not determined17557254793013355Mouse
27095931Pglq1_mpelvic girdle length QTL 1, 5 week (mouse)176000000128600000Mouse
27095928Pglq6_mpelvic girdle length QTL 6, 10 week (mouse)176000000148900000Mouse
26884448Sklq1_mskull length QTL 1, 5 week (mouse)176000000181500000Mouse
1558928Mord2_mmodifier of retinal degeneration 2 (mouse)Not determined177146478110608345Mouse
14697706Stsl3a_mSalmonella typhimurium susceptibility locus 3a (mouse)17750000095900000Mouse
14696693Avd2q1_mattack value day 2 QTL 1 (mouse)17900000091000000Mouse
4141725Wbcq4_mwhite blood cell quantitative locus 4 (mouse)Not determined179930958113931066Mouse
12050069Nabq1_mnasal bone morphology QTL 1 (mouse)179930958113931066Mouse
13452395Leusq2_mleucocytosis susceptibility QTL 2 (mouse)180267876126458780Mouse
1301350Nidd4k_mNidd4 on KK-A (mouse)Not determined782314261147249632Mouse
1357439Popoa_mpremature ovulation and primary oocyte arrest (mouse)Not determined182665468135687641Mouse
10412238Alpq5_malcohol preference QTL 5 (mouse)Not determined182904910116904910Mouse
12791004Aath7_maortic arch atherosclerosis 7 (mouse)182904910116904910Mouse
11667074Led2_mlate embryonic death 2 (mouse)185768306117267351Mouse
12790991Aath1_maortic arch atherosclerosis 1 (mouse)186556204120556204Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:811
Count of miRNA genes:478
Interacting mature miRNAs:561
Transcripts:ENSMUST00000066279, ENSMUST00000123745
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_133816 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030243887 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030243890 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC126024 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC133168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC153647 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK028826 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK032634 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK041504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK043259 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK178318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK183687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK184458 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK185674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK188734 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK190716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK192096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK192540 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK194369 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK196424 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK198233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK201769 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK202186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK214479 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK214837 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC012284 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC028911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC034733 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000066279   ⟹   ENSMUSP00000067581
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl188,998,137 - 89,082,790 (+)Ensembl
GRCm38.p6 Ensembl189,070,415 - 89,155,068 (+)Ensembl
RefSeq Acc Id: ENSMUST00000123745
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl188,998,175 - 89,040,582 (+)Ensembl
GRCm38.p6 Ensembl189,070,453 - 89,112,860 (+)Ensembl
RefSeq Acc Id: NM_133816   ⟹   NP_598577
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39188,998,137 - 89,082,809 (+)NCBI
GRCm38189,070,415 - 89,155,087 (+)NCBI
MGSCv37190,967,037 - 91,050,368 (+)RGD
Celera192,032,349 - 92,112,519 (+)RGD
cM Map1 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_030243887   ⟹   XP_030099747
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39188,998,318 - 89,082,790 (+)NCBI
GRCm38189,070,614 - 89,155,068 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030243890   ⟹   XP_030099750
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39188,998,061 - 89,082,790 (+)NCBI
GRCm38189,070,333 - 89,155,068 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_598577   ⟸   NM_133816
- UniProtKB: Q921I6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_030099750   ⟸   XM_030243890
- Peptide Label: isoform X2
RefSeq Acc Id: XP_030099747   ⟸   XM_030243887
- Peptide Label: isoform X1
RefSeq Acc Id: ENSMUSP00000067581   ⟸   ENSMUST00000066279
Protein Domains
SH3   ZU5

Promoters
RGD ID:6874434
Promoter ID:EPDNEW_M668
Type:initiation region
Name:Sh3bp4_1
Description:Mus musculus SH3-domain binding protein 4 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M669  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38189,070,449 - 89,070,509EPDNEW
RGD ID:6874436
Promoter ID:EPDNEW_M669
Type:single initiation site
Name:Sh3bp4_2
Description:Mus musculus SH3-domain binding protein 4 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M668  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38189,114,127 - 89,114,187EPDNEW
RGD ID:6818461
Promoter ID:MM_KWN:1580
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:OTTMUST00000072746,   OTTMUST00000072747
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36190,966,076 - 90,967,262 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2138297 AgrOrtholog
Ensembl Genes ENSMUSG00000036206 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000067581 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000066279 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro SH3-like_dom_sf UniProtKB/Swiss-Prot
  SH3_domain UniProtKB/Swiss-Prot
  SH3BP4 UniProtKB/Swiss-Prot
  SH3BP4_SH3 UniProtKB/Swiss-Prot
  ZU5_dom UniProtKB/Swiss-Prot
KEGG Report mmu:98402 UniProtKB/Swiss-Prot
MGD MGI:2138297 ENTREZGENE
NCBI Gene 98402 ENTREZGENE
PANTHER PTHR15603:SF3 UniProtKB/Swiss-Prot
Pfam SH3_1 UniProtKB/Swiss-Prot
  SH3_2 UniProtKB/Swiss-Prot
  ZU5 UniProtKB/Swiss-Prot
PhenoGen Sh3bp4 PhenoGen
PROSITE SH3 UniProtKB/Swiss-Prot
  ZU5 UniProtKB/Swiss-Prot
SMART SH3 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF50044 UniProtKB/Swiss-Prot
UniProt Q921I6 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q8BXV5 UniProtKB/Swiss-Prot
  Q8BY95 UniProtKB/Swiss-Prot
  Q8C007 UniProtKB/Swiss-Prot