Interpreting Mammalian Orthology Query Results

This Help document answers the following questions about interpreting the Mammalian Orthology Query Results :

See also:

What's in the Mammalian Orthology Query Results?

The Mammalian Orthology Query Results page contains:


How do I view the resources for genes or sequences?

A Mammalian Orthology Query Results table displays, by species, external gene resources and/or MGI-stored sequences for your query. To access:


How do I download sequences in FASTA format?

  1. Click to put a check mark in the Select column next to one or more sequences.
  2. Ensure that download in FASTA format appears in the box next to For the selected sequences.
  3. Click Go. The selected sequences appear on a new page, in FASTA format.

How do I forward sequences to MouseBLAST?

To forward sequences to MouseBLAST:

  1. Click to put a check mark in the Select column next one or more sequences.
  2. Click the down arrow in the box beside For the selected sequences.
  3. Click forward to MouseBLAST.
  4. Click Go.

For additional information, see:


How do the buttons work? What does Invert do?

Button Action Use this when...
Select all Puts a check mark into every available check box. You want to examine each sequence.
Invert A toggle switch. Removes any check marks and puts them in any boxes not previously selected.
  • the list you want is longer than the list you do not want. Click Select All, click the undesired sequences, click Invert.
  • you don't want the action of Reset.
Reset Removes any check marks from boxes. You want to start over and make all new selections.
Go Activates your choice (or the default) from the selection menu. You are ready to download a sequence in FASTA format or forward it to MouseBLAST. See How do I download sequences in FASTA format? or How do I forward sequences to MouseBLAST? for details.


How do I interpret these results?

For each ortholog in a class, the record shows some or all information in the following table, depending on the information available.

Species | Symbol | Chr (Location) Coordinates | AccID (Source) | Evidence | References (table) | Comparative Map | References (list) | Links

Species Species name of each ortholog in a class.
Symbol Symbol for an orthologous marker.
Chr (Location)
The chromosome the marker is assigned to, and, enclosed in parentheses, the cM position or cytogenetic band. Location information varies depending on information available.
AccID (Source) Database accession IDs assigned to the marker, linked to the database where the marker record is stored. Currently, MGI stores orthology information from databases such as Ark-Cat, BovMap, Entrez, HGNC, HorseBase, OMIM, PigBase, RGD, SheepBase.
EvidenceMGD orthology information includes criteria for orthology assertions. Criteria are represented as acronyms; possible values include:
AA Amino acid sequence comparison
CE Coincident expression
CL Conserved map location
FH Formation of functional heteropolymers
FC Functional complementation
IXImmunological cross-reaction
NSNot specified
NTNucleotide sequence comparison
SISimilar response to specific inhibitors
SLSimilar subcellular location
SSSimilar substrate specificity
SUSimilar subunit structure
XH Cross-hybridization to same molecular probe
References (table)Each criterion is associated with one or more references. Each evidence column contains a J:number, linked to the particular reference set for the criterion and species.
Comparative MapClick the desired species (rat, human) to see a 2 cM display around the queried marker.
References (list)Click Display all or select a species to see all or selected references.
LinksAdditional links to databases or resources with orthology data for this gene (e.g., Gene Tree, VISTA, HomoloGene, MGI Protein Superfamily reports, MGI Mouse-Human-Rat Comparative GO Graphs).


Are there any supporting references?

Yes. Each orthology class represented in the results includes links to supporting references. Beneath the table is the option to display all references for the orthology class or those pertaining to selected species. References are in short citation format and include the following information:


Are there any comparative maps?

Yes. The query results for each orthology class provide a link to a comparative map showing the region within 2 cM of the mouse marker and any orthologies in the selected other species. This link only appears if the query results include mouse markers. The map display is in Web Map format.