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
  ID: OTOL1_MOUSE
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
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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     
 RGDEnsembl   
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  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.