Mouse Gene Bin1 (ENSMUST00000234857.1) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: May be involved in regulation of synaptic vesicle endocytosis. May act as a tumor suppressor and inhibits malignant cell transformation. (from UniProt O08539)
Gencode Transcript: ENSMUST00000234857.1
Gencode Gene: ENSMUSG00000024381.16
Transcript (Including UTRs)
   Position: mm10 chr18:32,377,230-32,435,290 Size: 58,061 Total Exon Count: 14 Strand: +
Coding Region
   Position: mm10 chr18:32,377,407-32,435,242 Size: 57,836 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr18:32,377,230-32,435,290)mRNA (may differ from genome)Protein (434 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGeneCardsMGIPubMed
ReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: BIN1_MOUSE
DESCRIPTION: RecName: Full=Myc box-dependent-interacting protein 1; AltName: Full=Amphiphysin II; AltName: Full=Amphiphysin-like protein; AltName: Full=Bridging integrator 1; AltName: Full=SH3 domain-containing protein 9;
FUNCTION: May be involved in regulation of synaptic vesicle endocytosis. May act as a tumor suppressor and inhibits malignant cell transformation.
SUBUNIT: Heterodimer with AMPH (By similarity). Interacts (via SH3 domain) with SYNJ1. Interacts (via SH3 domain) with DNM1. Interacts with CLTC. Interacts with AP2A2. Interacts with AP2B1. Interacts with MYC (via N-terminal transactivation domain); the interaction requires the integrity of the conserved MYC box regions 1 and 2. Binds SH3GLB1. Interacts with BIN2 (By similarity).
SUBCELLULAR LOCATION: Cytoplasm (By similarity). Nucleus (By similarity).
TISSUE SPECIFICITY: Isoform 1 is expressed mainly in the brain. Isoform 2 is widely expressed.
PTM: Phosphorylated by protein kinase C (By similarity).
SIMILARITY: Contains 1 BAR domain.
SIMILARITY: Contains 1 SH3 domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -91.90177-0.519 Picture PostScript Text
3' UTR -6.4048-0.133 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR003005 - Amphiphysin
IPR003023 - Amphiphysin_2
IPR004148 - BAR_dom
IPR011511 - SH3_2
IPR001452 - SH3_domain

Pfam Domains:
PF00018 - SH3 domain
PF03114 - BAR domain
PF07653 - Variant SH3 domain
PF14604 - Variant SH3 domain

SCOP Domains:
103657 - BAR/IMD domain-like
50044 - SH3-domain

ModBase Predicted Comparative 3D Structure on O08539
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
GenBankRGD  WormBase 
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0002020 protease binding
GO:0005515 protein binding
GO:0042802 identical protein binding
GO:0044877 macromolecular complex binding
GO:0046982 protein heterodimerization activity
GO:0048156 tau protein binding
GO:0051015 actin filament binding
GO:0051020 GTPase binding
GO:0051087 chaperone binding
GO:0070063 RNA polymerase binding

Biological Process:
GO:0006897 endocytosis
GO:0006997 nucleus organization
GO:0007275 multicellular organism development
GO:0008333 endosome to lysosome transport
GO:0030100 regulation of endocytosis
GO:0030154 cell differentiation
GO:0042692 muscle cell differentiation
GO:0043065 positive regulation of apoptotic process
GO:0043547 positive regulation of GTPase activity
GO:0045664 regulation of neuron differentiation
GO:0045807 positive regulation of endocytosis
GO:0048711 positive regulation of astrocyte differentiation
GO:0051647 nucleus localization
GO:0060988 lipid tube assembly
GO:0071156 regulation of cell cycle arrest
GO:1902430 negative regulation of beta-amyloid formation
GO:1902960 negative regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process

Cellular Component:
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0005874 microtubule
GO:0008021 synaptic vesicle
GO:0016020 membrane
GO:0030018 Z disc
GO:0030315 T-tubule
GO:0030424 axon
GO:0031674 I band
GO:0033268 node of Ranvier
GO:0043194 axon initial segment
GO:0043196 varicosity
GO:0043679 axon terminus
GO:0044300 cerebellar mossy fiber
GO:0060987 lipid tube


-  Descriptions from all associated GenBank mRNAs
  U60884 - Mus musculus SH3P9 mRNA, complete cds.
BC065160 - Mus musculus bridging integrator 1, mRNA (cDNA clone MGC:90098 IMAGE:5718309), complete cds.
U86405 - Mus musculus brain amphiphysin 2 mRNA, complete cds.
AK133306 - Mus musculus adult male testis cDNA, RIKEN full-length enriched library, clone:4932432B07 product:hypothetical protein, full insert sequence.
AK184020 - Mus musculus cDNA, clone:Y0G0128E15, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000025239, based on BLAT search.
AK191982 - Mus musculus cDNA, clone:Y1G0107I07, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000025239, based on BLAT search.
BC030446 - Mus musculus bridging integrator 1, mRNA (cDNA clone IMAGE:5400713), with apparent retained intron.
AK077987 - Mus musculus 13 days embryo male testis cDNA, RIKEN full-length enriched library, clone:6030496J08 product:myc box dependent interacting protein 1, full insert sequence.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein O08539 (Reactome details) participates in the following event(s):

R-MMU-8867754 F- and N- BAR domain proteins bind the clathrin-coated pit
R-MMU-8868230 SNX9 recruits components of the actin polymerizing machinery
R-MMU-8868661 Dynamin-mediated GTP hydrolysis promotes vesicle scission
R-MMU-8868648 SYNJ hydrolyze PI(4,5)P2 to PI(4)P
R-MMU-8868660 Auxilin recruits HSPA8:ATP to the clathrin-coated vesicle
R-MMU-8871194 RAB5 and GAPVD1 bind AP-2
R-MMU-8868659 Clathrin recruits auxilins to the clathrin-coated vesicle
R-MMU-8868236 BAR domain proteins recruit dynamin
R-MMU-8868651 Endophilins recruit synaptojanins to the clathrin-coated pit
R-MMU-8856828 Clathrin-mediated endocytosis
R-MMU-199991 Membrane Trafficking
R-MMU-5653656 Vesicle-mediated transport

-  Other Names for This Gene
  Alternate Gene Symbols: Amphl, BIN1_MOUSE, O08539, Q62434, Sh3p9, U60884, uc008ejj.1, uc008ejj.2
UCSC ID: uc008ejj.2
RefSeq Accession: NM_001083334
Protein: O08539 (aka BIN1_MOUSE)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.