MaizeMine v1.5 hosts the Z. mays B73 reference genome assembly (Zm-B73-REFERENCE-NAM-5.0) and genome assemblies of 25 other Z. mays NAM founders. Gene sets include genes from MaizeGDB for all the lines, and NCBI RefSeq for B73. The gene sources for the MaizeGDB gene sets include both the name of the maize line and the MaizeGDB gene set name, e.g. "B73 Zm00001eb.1", to make it easy to select a maize line of interest.
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Pangene data for the Z. mays NAM founders are from MaizeGDB. Pangene groups were assigned identifiers by MaizeMine. Individual genes within pangenes are called "syntelogs". You can search for syntelogs between two Z. mays lines, or you can query entire pangenes containing syntelogs among all the lines.
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Gene expression levels (FPKM) are from MaizeGDB qTeller. Mean expression levels for tissue samples are provided for the B73 Zm00001eb.1 and RefSeq gene sets.
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MaizeMine includes information about proteins and protein domains from UniProt and InterProt.
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MaizeMine includes homologue predictions from Ensembl Plants for Zea mays B73, other monocots and Arabidopsis.
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MaizeMine v1.5 includes GO annotation for all Z. mays lines. Pathway information includes KEGG and Plant Reactome for B73, and pathways computed at MaizeGDB using E2P2 for all Z. mays lines.
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MaizeMine v1.5 provides SNP information from Ensembl Plants for B73. SNP identifiers are from Panzea.
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The query templates in this category allow you to perform simple queries on an entire gene or protein set for a species.
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The query templates in this category allow you to retrieve gene database crossreference ids for B73 (Zm00001eb.1 <=> RefSeq) and gene alias ids (Zm00001eb.1 <=> AGPv4_Zm00001d.2 and Zm00001eb.1 <=> AGPv3.21_5b+).
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Community datasets include published data that were mapped to the Zm-B73-REFERENCE-NAM-5.0 assembly at MaizeGDB. See the Data Source page for a list of datasets.
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