Mouse Gene Otol1 (ENSMUST00000053013.5) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus otolin 1 (Otol1), mRNA. (from RefSeq NM_001018031)
Gencode Transcript: ENSMUST00000053013.5
Gencode Gene: ENSMUSG00000027788.6
Transcript (Including UTRs)
   Position: mm10 chr3:70,007,613-70,028,708 Size: 21,096 Total Exon Count: 5 Strand: +
Coding Region
   Position: mm10 chr3:70,018,494-70,028,125 Size: 9,632 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2019-09-20

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr3:70,007,613-70,028,708)mRNA (may differ from genome)Protein (482 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Otolin-1; Flags: Precursor;
SUBUNIT: Interacts with OC90.
SUBCELLULAR LOCATION: Secreted (By similarity).
TISSUE SPECIFICITY: Expressed in the organic matrix of otoconia (at protein level).
SIMILARITY: Belongs to the OTOL1 family.
SIMILARITY: Contains 1 C1q domain.
SIMILARITY: Contains 3 collagen-like domains.

-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -29.00129-0.225 Picture PostScript Text
3' UTR -144.00583-0.247 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
IPR001073 - C1q
IPR008160 - Collagen
IPR008983 - Tumour_necrosis_fac-like

Pfam Domains:
PF00386 - C1q domain
PF01391 - Collagen triple helix repeat (20 copies)

SCOP Domains:
49842 - TNF-like

ModBase Predicted Comparative 3D Structure on Q4ZJM7
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 orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein Sequence    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function

Biological Process:
GO:0008150 biological_process

Cellular Component:
GO:0005575 cellular_component
GO:0005576 extracellular region
GO:0005581 collagen trimer

-  Descriptions from all associated GenBank mRNAs
  DQ002405 - Mus musculus otolin-1 mRNA, complete cds.
AK158454 - Mus musculus adult inner ear cDNA, RIKEN full-length enriched library, clone:F930117P14 product:hypothetical Collagen helix repeat/Complement C1q protein containing protein, full insert sequence.
BC150904 - Mus musculus gene model 414, (NCBI), mRNA (cDNA clone MGC:183815 IMAGE:9087815), complete cds.

-  Other Names for This Gene
  Alternate Gene Symbols: B9EKG7, Gm414, NM_001018031, OTOL1_MOUSE, Q3TYP6, Q4ZJM7, uc008pmo.1, uc008pmo.2
UCSC ID: uc008pmo.2
RefSeq Accession: NM_001018031
Protein: Q4ZJM7 (aka OTOL1_MOUSE)
CCDS: CCDS17409.1

-  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.