Mouse Gene Ibsp (ENSMUST00000031246.8) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus integrin binding sialoprotein (Ibsp), mRNA. (from RefSeq NM_008318)
Gencode Transcript: ENSMUST00000031246.8
Gencode Gene: ENSMUSG00000029306.8
Transcript (Including UTRs)
   Position: mm10 chr5:104,299,171-104,311,469 Size: 12,299 Total Exon Count: 7 Strand: +
Coding Region
   Position: mm10 chr5:104,302,137-104,310,573 Size: 8,437 Coding Exon Count: 6 

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 (chr5:104,299,171-104,311,469)mRNA (may differ from genome)Protein (324 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: SIAL_MOUSE
DESCRIPTION: RecName: Full=Bone sialoprotein 2; AltName: Full=Bone sialoprotein II; Short=BSP II; AltName: Full=Cell-binding sialoprotein; AltName: Full=Integrin-binding sialoprotein; Flags: Precursor;
FUNCTION: Binds tightly to hydroxyapatite. Appears to form an integral part of the mineralized matrix. Probably important to cell-matrix interaction. Promotes Arg-Gly-Asp-dependent cell attachment (By similarity).
SUBCELLULAR LOCATION: Secreted.
PTM: N-glycosylated; glycans consist of sialylated and core- fucosylated bi-, tri- and tetraantennary chains (By similarity).
PTM: Sulfated on either Tyr-320 or Tyr-321 (By similarity).
MISCELLANEOUS: It is possible that the segments of clustered carboxyl groups mediate the strong binding to hydroxyapatite.

-  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 -63.40197-0.322 Picture PostScript Text
3' UTR -217.40896-0.243 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
IPR008412 - BSP_II

Pfam Domains:
PF05432 - Bone sialoprotein II (BSP-II)

ModBase Predicted Comparative 3D Structure on Q61711
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-  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 orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005178 integrin binding

Biological Process:
GO:0001503 ossification
GO:0007155 cell adhesion
GO:0030198 extracellular matrix organization
GO:0030282 bone mineralization
GO:0031214 biomineral tissue development
GO:0045785 positive regulation of cell adhesion
GO:0071363 cellular response to growth factor stimulus

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0031012 extracellular matrix
GO:0031982 vesicle


-  Descriptions from all associated GenBank mRNAs
  AK132371 - Mus musculus 15 days embryo head cDNA, RIKEN full-length enriched library, clone:4022436M19 product:integrin binding sialoprotein, full insert sequence.
L23801 - Mus musculus sialoprotein II mRNA, complete cds with repeats.
BC045143 - Mus musculus integrin binding sialoprotein, mRNA (cDNA clone MGC:54706 IMAGE:6391115), complete cds.
AK162640 - Mus musculus adult male bone cDNA, RIKEN full-length enriched library, clone:9830134I06 product:integrin binding sialoprotein, full insert sequence.
L20232 - Mus musculus bone sialoprotein (IBSP) mRNA, complete cds.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu04510 - Focal adhesion
mmu04512 - ECM-receptor interaction

BioCarta from NCI Cancer Genome Anatomy Project
m_npp1Pathway - Regulators of Bone Mineralization

Reactome (by CSHL, EBI, and GO)

Protein Q61711 (Reactome details) participates in the following event(s):

R-MMU-265427 Interaction of integrin alphaVbeta3 with IPSP (Bone sialoprotein 2)
R-MMU-216083 Integrin cell surface interactions
R-MMU-1474244 Extracellular matrix organization

-  Other Names for This Gene
  Alternate Gene Symbols: NM_008318, Q61363, Q61711, Q80VR6, SIAL_MOUSE, uc008ykg.1, uc008ykg.2, uc008ykg.3
UCSC ID: uc008ykg.3
RefSeq Accession: NM_008318
Protein: Q61711 (aka SIAL_MOUSE)
CCDS: CCDS19485.1

-  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.