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Gene Expression Data
Click to modify search
    Default settings do not include RNA-Seq data; select assay type RNA-Seq to include.
Genes

Find expression data for...

One genee.g., Shh or kit oncogene
Genes with similar nomenclaturee.g., Hoxa*
List of genese.g., Wnt1, Bmp7, En1, Isl1...		|
OR
|
A set of genes defined by
A set of genes defined by...

You can find sets of genes associated with terms in MGI's vocabularies and ontologies:

  • Function - Gene Ontology (GO)
  • Phenotype - Mammalian Phenotype Ontology (MP)
  • Disease - Disease Ontology (DO)
  • Functione.g., cell-cell signalling
  • Phenotypee.g., obese
  • Diseasee.g., DiGeorge Syndrome
*Input not allowed in both boxes.Please clear one field before submitting your query.
 

Genome location
Find expression data for a set of genes defined by
genomic interval(s) (genome build GRCm39).
e.g., Chr12:3000000-10000000
Anatomical structure or stage
Find assay results where expression is    
Anatomical Structures:
Anatomical Structures...

Use the Anatomical Structure fieldto quickly find and select anatomyterms for searching expression data.

To explore the full anatomyontology, you can use theMouse Developmental Anatomy Browser.

AND / OR    Developmental Stages:
Continue typing to add another structure.

 
Use Theiler Stages
Use Ages (dpc)
Mutant / wild type
Find expression data in ...
*Please clarify your search by either selecting the'Specimens mutated in' button or clearing its gene box.
*You have selected'Specimens mutated in gene'.Please enter a gene.
Assay types

  
Warning. Invalid Selection
    Search for genes by expression profile.Select an Assay Type to activate the form.
☞
Find genes where expression is:Show Theiler Stage selectors
Show Theiler Stage selectors ...

You can restrict your query to specific Theiler Stages for each structure specified. You can also query for stages without specifying a structure. NOTE: that when you toggle this button, previous stage specifications (if any) are discarded.

DetectedNot
detected
NOT detected or analyzed in...NOT detected in...

The search will return genes whose expression was absent (not detected), as well as genes whose expression has not been analyzed or recorded in the database for the specified structure.

The search will return genes whose expression is below the TPM cutoff value (<0.5 TPM) for the specified structure.

Anatomical Structureand/orTheiler Stage(s)
    Expression Profile Search limited to expression data from wild-type specimens.
  
Genes
Search by:
Enter Text

ID/Symbols List:
  
  * tab, space, and newline separated ids
  * limit input to 5000 ids/symbols

|
OR
|
Use IDs from a File
File Type:
   tab-delimited
   comma separated
ID/Symbols column:
  
* ID/Symbols parsed from a single column

ID/Symbols File:
  

  

Results
 
Filter

Large search returns make our pages slow to load. Therefore, some functionality has been disabled until you refine your search to bring the number of returned assay results underTBD.
Export: Text FileShow Additional Sample Data
Expression images in MGI are copyrighted; click on an image for details about their use.
Theiler Stage
 
Export RNA-Seq search results to a heat map
for visualization and analysis.
Powered by: Morpheus.
 

Matrix Legend

Number of expression results annotated as

present in structure and/or substructures
> 10,000
1,001 - 10,000
51 - 1,000
5 - 50
1 - 4
absent in structure
> 10,000
1,001 - 10,000
51 - 1,000
5 - 50
1 - 4

Other Symbols

structure has both present
and absent results
ambiguous in structure
only absent or ambiguous results
in substructures
o
tissue exists atTheiler stage (but
has no annotations)
tissue does not exist at this stage
no annotations for the gene in this
tissue
Click on a grid cell to access annotation details and images.

Filter

Use gray checkboxes to select rows/columns for filtering
Matrix Legend

Number of expression results annotated as

present in structure and/or substructures
> 10,000
1,001 - 10,000
51 - 1,000
5 - 50
1 - 4
absent in structure
> 10,000
1,001 - 10,000
51 - 1,000
5 - 50
1 - 4

Other Symbols

structure has both present
and absent results
ambiguous in structure
only absent or ambiguous results
in substructures
o
tissue exists atTheiler stage (but
has no annotations)
tissue does not exist at this stage
no annotations for the gene in this
tissue
Click on a grid cell to access annotation details and images.

Filter

Use gray checkboxes to select rows/columns for filtering

Too many RNA-Seq results for export to heat map. Please refine your search to bring total RNA-Seq results under 10,000,000.

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources
Funding Information
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Send questions and comments to User Support.		 last database update
01/28/2026
MGI 6.24		The Jackson Laboratory
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