Interpreting Vertebrate Homology Class Reports
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This help document answers the following questions about the Vertebrate Homology Class Report.

See also:

What's in the Vertebrate Homology Class Report?

The Vertebrate Homology Class Report contains:

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What is the source of the homology assertions?

MGI loads sequence based vertebrate homology assertions from NCBI HomoloGene. HomoloGene programmatically detects homologs among the genome features of several completely sequenced eukaryotic genomes.

MGI includes homology for the following selected vertebrate species from HomoloGene:

These are just a subset of the total species represented in HomoloGene Classes at NCBI.

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Which fields should show up in the Homology Class table?

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

Species | Symbol | Gene Links | Genetic Location | Genome Coordinates | Associated Human Diseases | Sequences

FIELD DESCRIPTION
Species Species name of each homolog in a class.
Symbol Symbol for an homologous marker.
Gene Links Database accession IDs assigned to the marker, linked to the database where the marker record is stored.
Genetic Location The chromosome the marker is assigned to and the cM position or cytogenetic band. Location information varies depending on information available.
Genome Coordinates Genome coordinate range in base pairs, strand and the genome build number.
Associated Human Diseases Human disease terms, linked to MGI Human Disease and Mouse Model Detail pages. Diseases that are only annotated to complex genotypes—those involving more than one genome feature—are not listed in this summary. See also the Human Disease Vocabulary Browser.
Sequences Representative transcript and protein sequence ID, linked to the provider's web site. Check boxes permit downloading selected sequences in FASTA format or forwarding them to MouseBLAST.

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Can I view a multiple sequence alignment?

Yes. Just above the table is a link to a Multiple Sequence Alignment of protein sequences at HomoloGene.

How do I download sequences in FASTA format?

  1. Click to put a check mark next to one or more sequences.
  2. Ensure that get FASTA appears at the top of the Sequences column.
  3. Click Go. The selected sequences appear on a new page, in FASTA format.

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How do I forward sequences to MouseBLAST?

To forward sequences to MouseBLAST:

  1. Click to put a check mark next to one or more sequences.
  2. Click on get FASTA and change the toggle to MouseBLAST.
  3. Click Go.

For additional information, see:

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Are there curated Gene Ontology (GO) annotations for mouse, human, or rat genes in this homology class?

If available, there will be a link to a Comparative GO Graph of curated mouse, human and rat annotations of the molecular functions, biological processes and cellular components of the gene products in this homology class.

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