The name for this marker appears beneath the symbol. A symbol may be a gene, DNA segment, QTL, cytogenetic marker, pseudogene, BAC/YAC end, complex/cluster/region, or one of the other genome features including endogenous viruses, retrotransposons, integration sites, and repetitive elements. An additional class of such features includes genomic segments that function or are biologically significant as DNA elements.

The MGI accession identifier appears beneath the name.

BioType Conflict

• When different annotation groups disagree as to the marker type (e.g., protein coding versus pseudogene), click Biotype Conflict to see details about the conflict.
• Identifiers in the Gene ID column link to the database source of the annotation(i.e., VEGA, Ensembl, NCBI).

Strain-Specific Marker

• When a marker is strain specific and strain data is known, click Strain-Specific Marker for details such as the presence/absence of this gene in a given strain or notes about this genomic region appear.
• If there are strain-specific references, they appear at the bottom of this box, linked to the MGI Reference Detail Page.

• Chromosome to which the marker is assigned. Aside from a chromosome number, other possible values include MT (mitochondrial), XY (XY pseudoautosomal), UN (chromosome assignment is not known).
• Marker's centimorgan position. Centimorgan positions for genes and markers in MGI are based on linear interpolation using the standard genetic map described in Cox et al. (2009) (PMID). Markers without genome coordinates cannot be assigned specific cM locations and are designated as syntenic.
• Cytogenetic position.

• genome coordinate range and strand, in base pairs (provider of genomic coordinates is indicated)
• a Get FASTA button will download the genomic sequence based on the coordinates. You can also add an equal amount of flanking sequence to each end.
• external links to other genomic context displays (e.g., Vega ContigView, Ensembl ContigView, UCSC Browser, NCBI Map Viewer)
• On the right, a thumbnail image link to the MGI Mouse Genome Browser display for the marker's coordinates. You can also click MGI Mouse Genome Browser for a full-page display.
  Note: If the information you expect to see does not appear in the Mouse Genome Browser (or other browser) display, you may need to turn on (i.e., click) the viewing aides (i.e., tracks, features, maps) in the various displays.

• A list of species with curated orthology relationships with (in parentheses) a link to the MGI Mammalian Orthology Query Results page of curated orthology relationships
• A link to a mouse/human comparative map display of the area plus or minus 2 cM around the marker
• A link to this marker's MGI Protein Superfamily Detail page if it can be annotated to a Protein Information Resource SuperFamily (PIRSF) classification name
• A link to the Gene Tree View at Ensembl (phylogenetic trees of animal genes).

• Official human gene symbol (linked to EntrezGene), name and NCBI EntrezGene ID
• Human Synonyms: Names or symbols for a given marker that may appear in the literature but which are not approved names or symbols
• Human genome coordinate range and strand, in base pairs, from NCBI
• The number of human diseases associated with this gene in OMIM. When you click on this number a pop-up window appears listing the associated diseases (linked to the MGI Human Disease and Mouse Model Detail page) and the OMIM ID (linked to the OMIM entry for that disease). An asterisk appears if a mouse model of that disease is associated with mutations in the orthologous mouse gene. Note: Inclusion in this report does not necessarily mean that mutations in the gene of interest contribute to or cause the disease listed in the Human Disease column. The gene may have an allele that is part of a complex genotype that includes other causative genes.

• Counts of and links to All alleles and to any other phenotypic allele category associated with this marker.
• A short summary of phenotypes produced by mutant alleles.
• The number of human diseases associated with this mouse gene in MGI. When you click on this number a pop-up window appears listing the associated diseases (linked to the MGI Human Disease and Mouse Model Detail page) and the OMIM ID (linked to the OMIM entry for that disease). An asterisk appears if that disease is associated with mutations in the mouse gene. At the bottom of the window is a link to a list of all mutant alleles of that gene that are associated with human disease models. (This does not necessarily mean that mutations in this gene contribute to or are causative of the disease.)
• Alleles Annotated to Human Diseases: a link to the Phenotypic Alleles Query Results -- Summary page: alleles with OMIM annotations to associated genotypes
• Phenotype Images: Click the number to bring up the All Phenotype Images for Gene report and view every phenotype image that MGI has for this gene.

• All GO classifications (# annotations) links to a summary of the nn annotated items found (click here for information about interpreting the fields on this page). You can browse the GO vocabulary from the query results section and locate multiple terms that annotate a gene record.
• Links to GO annotations for Process (biological), Component (cellular), and Function (molecular) of the gene.
• A link to the GO Consortium Reference Genome Annotation Project, if this gene is annotated in the project.
• A link to any External Resources (for example, FuncBase, a database of functional predictions) for additional information about this gene.

• Literature Summary: number of references analyzing expression for this gene; links to a table of the ages and assay types analyzed.
• Data Summary - each number links to a summary report:
  • Results - expression results; links to details.
  • Tissues - anatomical structures where expression was analyzed; summary report details whether or not expression was detected.
  • Images - images associated with results; summary report displays thumbnails of any associated figures; links to full-size images.
• Theiler stage: List of all developmental stages where expression was analyzed; each summary report lists expression results from that stage.
• Assay Type Results: assay type used for the analyses and the number of results, linked to summary reports.
• cDNA source data: the number of cDNA clones for this marker, linked to a summary page with the following columns: Nucleotide Probe/Clone AccID, Name, Clone Collection, Age, Tissue, Cell Line, and Gene. If (PUTATIVE) appears beside the gene symbol, it means that the relationship between the gene and clone is established by computation rather than experimental data.
• External Resources: links to expression information for this marker in other than MGI databases. Examples: Allen Brain Atlas, GENSAT, gene microarray profile pages at GEO, ArrayExpress.

• All nucleic, Genomic, cDNA, Primer pair, Other: link is to Molecular Probes and Clones Query Results -- Summary.
• Antibodies: link is to Antibodies Query Results -- Summary.
• Microarray probeset: link is to Microarray Probeset Summary

• List of and links to external resources with database accession IDs associated to this marker. Examples are EC, Ensembl Gene Model, DoTS, DFCI, NIA Mouse Gene Index, Entrez Gene, International Mouse Knockout Project Consortium Status.
• Additionally, there may be links to the sequence evidence underlying gene predictions provided by NCBI, Ensembl, and VEGA.

• Polymorphisms Query Results -- Summary for any RFLPs/PCRs for this marker:
• Mouse SNPs Query Results -- Summary for any SNPs within 2 kb of this marker. Note: If MGI gene and marker genome coordinates are out of sync with the SNP data, within 2 kb of this marker does not appear, and the summary report indicates the discrepancy. See Understanding Mouse SNP Coordinate Discrepancies for details.

• List of InterPro domain IDs & descriptions for protein sequences encoded by the gene. The ID links to the InterPro detail page for the domain at the EBI. If there is a SWISS-PROT sequence associated to the marker, click Graphical View of Protein Domain Structure to view the protein domain structure of the SWISS-PROT sequence at InterPro web.
• Links to Protein Ontology for those genes with mappings to PRO IDs.

• Details of one selected reference, linked to its detail page.
• Details of the earliest and latest references, linked to their detail pages.
• All references, linked to a listing on the summary report page. The number in parentheses indicates the total of the references on the summary.