Mouse Gene Samsn1 (ENSMUST00000114239.8) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus SAM domain, SH3 domain and nuclear localization signals, 1 (Samsn1), mRNA. (from RefSeq NM_023380)
Gencode Transcript: ENSMUST00000114239.8
Gencode Gene: ENSMUSG00000022876.18
Transcript (Including UTRs)
   Position: mm10 chr16:75,858,793-75,909,310 Size: 50,518 Total Exon Count: 8 Strand: -
Coding Region
   Position: mm10 chr16:75,859,440-75,909,186 Size: 49,747 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:75,858,793-75,909,310)mRNA (may differ from genome)Protein (372 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
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-  Comments and Description Text from UniProtKB
  ID: SAMN1_MOUSE
DESCRIPTION: RecName: Full=SAM domain-containing protein SAMSN-1; AltName: Full=SAM domain, SH3 domain and nuclear localization signals protein 1; AltName: Full=SH3 protein expressed in lymphocytes 2; AltName: Full=SH3-lymphocyte protein 2; Short=SLy2;
FUNCTION: Negative regulator of B-cell activation. Down-regulates cell proliferation (in vitro). Promotes RAC1-dependent membrane ruffle formation and reorganization of the actin cytoskeleton. Regulates cell spreading and cell polarization. Stimulates HDAC1 activity. Regulates LYN activity by modulating its tyrosine phosphorylation.
SUBUNIT: Interacts with FASLG (By similarity). Interacts with phosphotyrosine containing proteins. Interacts (via SH3 domain) with CTTN. Interacts (phosphorylated at Ser-23) with YWHAB, YWHAE, YWHAG, YWHAH, YWHAZ and SFN. Interacts directly with SAP30 and HDAC1. Identified in a complex with SAP30 and HDAC1.
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Cell projection, ruffle. Note=Shuttles between cytoplasm and nucleus. Colocalizes with the actin cytoskeleton and actin-rich membrane ruffles.
TISSUE SPECIFICITY: Detected in spleen and lymph node (at protein level).
INDUCTION: Up-regulated in peripheral blood B-cells by IL4 and bacterial lipopolysaccharide (LPS).
DISRUPTION PHENOTYPE: No visible phenotype. Mice have normal bone marrow B-cell development and normal splenic T- and B-cell populations, but show an enhanced immune response upon immunization. Mice have constitutively activated Lyn, due to constitutive Lyn tyrosine phosphorylation.
SIMILARITY: Contains 1 SAM (sterile alpha motif) domain.
SIMILARITY: Contains 1 SH3 domain.

-  Primer design for this transcript
 

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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.
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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 -37.10124-0.299 Picture PostScript Text
3' UTR -131.50647-0.203 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
IPR021090 - rSAM/SH3_domain-containing
IPR001660 - SAM
IPR013761 - SAM/pointed
IPR011510 - SAM_2
IPR011511 - SH3_2
IPR001452 - SH3_domain

Pfam Domains:
PF00536 - SAM domain (Sterile alpha motif)
PF07647 - SAM domain (Sterile alpha motif)
PF07653 - Variant SH3 domain
PF12485 - Lymphocyte signaling adaptor protein

SCOP Domains:
47769 - SAM/Pointed domain
50044 - SH3-domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1V38 - NMR


ModBase Predicted Comparative 3D Structure on P57725
FrontTopSide
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
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
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 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0001784 phosphotyrosine binding

Biological Process:
GO:0002820 negative regulation of adaptive immune response
GO:0050732 negative regulation of peptidyl-tyrosine phosphorylation
GO:0050869 negative regulation of B cell activation

Cellular Component:
GO:0001726 ruffle
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0042995 cell projection


-  Descriptions from all associated GenBank mRNAs
  BC052906 - Mus musculus SAM domain, SH3 domain and nuclear localization signals, 1, mRNA (cDNA clone MGC:60459 IMAGE:30078141), complete cds.
BC064778 - Mus musculus SAM domain, SH3 domain and nuclear localization signals, 1, mRNA (cDNA clone MGC:76626 IMAGE:30077237), complete cds.
DQ333189 - Mus musculus SH3-lymphocyte protein 2 (Samsn1) mRNA, complete cds.
AK053946 - Mus musculus 2 days pregnant adult female oviduct cDNA, RIKEN full-length enriched library, clone:E230005H22 product:SAM domain, SH3 domain and nuclear localisation signals, 1, full insert sequence.
AK041340 - Mus musculus 3 days neonate thymus cDNA, RIKEN full-length enriched library, clone:A630003J01 product:SAM domain, SH3 domain and nuclear localisation signals, 1, full insert sequence.
AK016072 - Mus musculus adult male testis cDNA, RIKEN full-length enriched library, clone:4930548L11 product:SAM domain, SH3 domain and nuclear localisation signals, 1, full insert sequence.
AF222928 - Mus musculus SAMSN1 mRNA, complete cds.
AK041566 - Mus musculus 3 days neonate thymus cDNA, RIKEN full-length enriched library, clone:A630021E24 product:SAM domain, SH3 domain and nuclear localisation signals, 1, full insert sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_023380, P57725, Q2LE09, Q5RKU0, Q6P210, Q8C6S2, SAMN1_MOUSE, uc007zrs.1, uc007zrs.2
UCSC ID: uc007zrs.2
RefSeq Accession: NM_023380
Protein: P57725 (aka SAMN1_MOUSE)
CCDS: CCDS37378.1

-  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.