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Integrating Genetics and Genomics to Advance Soybean Research
SoyBase
SoyBase transitions to NEW site on 10/1/2024
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A previous version of this gene model can be found here:
| Database ID | Annotation Type | Annotation Description | Annotation Source | Match Score | Evidence Code |
|---|---|---|---|---|---|
| AT5G11880.1 | AT | Pyridoxal-dependent decarboxylase family protein | JGI | N/A | IEA |
| GO:0006596 | GO-bp | polyamine biosynthetic process | EnsemblGenomes | N/A | IEA |
| GO:0033387 | GO-bp | putrescine biosynthetic process from ornithine | EnsemblGenomes | N/A | IEA |
| GO:0005737 | GO-cc | cytoplasm | EnsemblGenomes | N/A | IEA |
| GO:0003824 | GO-mf | catalytic activity | EnsemblGenomes | N/A | IEA |
| GO:0003824 | GO-mf | catalytic activity | JGI | N/A | IEA |
| GO:0004586 | GO-mf | ornithine decarboxylase activity | EnsemblGenomes | N/A | IEA |
| GO:0016829 | GO-mf | lyase activity | EnsemblGenomes | N/A | IEA |
| KOG0622 | KOG | Ornithine decarboxylase | JGI | N/A | IEA |
| PTHR11482 | Panther | ARGININE/DIAMINOPIMELATE/ORNITHINE DECARBOXYLASE | JGI | N/A | IEA |
| PTHR11482:SF29 | Panther | JGI | N/A | IEA | |
| PF00278 | PFAM | Pyridoxal-dependent decarboxylase, C-terminal sheet domain | JGI | N/A | IEA |
| PF02784 | PFAM | Pyridoxal-dependent decarboxylase, pyridoxal binding domain | JGI | N/A | IEA |
| POLYAMINSYN3-PWY | SoyCyc9 | superpathway of polyamine biosynthesis II | Plant Metabolic Network | ISS | |
| PWY-46 | SoyCyc9 | putrescine biosynthesis III | Plant Metabolic Network | ISS | |
| PWY-6305 | SoyCyc9 | putrescine biosynthesis IV | Plant Metabolic Network | ISS | |
| GN7V-54723 | SoyCyc9-rxn | ornithine decarboxylase | Plant Metabolic Network | ISS |
| Locus | Gene Symbol | Protein Name |
|---|---|---|
| ODC2 | ornithine decarboxylase |
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Glyma.06g020300 not represented in the dataset |
Glyma.06g020300 not represented in the dataset |
| Libault et al. 2010, Plant Phys 152(2):541-552. Complete Transcriptome of the Soybean Root Hair Cell, a Single-Cell Model, and Its Alteration in Response to Bradyrhizobium japonicum Infection |
Severin et al. 2010, BMC Plant Biology 10:160 RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome |
Gene families from Phytozome are displayed using the PhyloTree viewer developed by LIS.
Gene information in GlycineMine developed by LIS.
Gene families from PhyloGenes.
| Paralog | Evidence | Comments |
|---|---|---|
| Glyma.04g020200 | IGC | Paralogs in soybean determined by Steven Cannon using BLAST, DAGChainer, PAML, and selection of gene pairs from synteny blocks with median Ks values of less than 0.35. |
| Corresponding Name | Annotation Version | Evidence | Comments |
|---|---|---|---|
| Glyma06g02290 | Wm82.a1.v1.1 | IGC | As supplied by JGI |
>Glyma.06g020300.1 sequence-type=CDS polypeptide=Glyma.06g020300.1.p locus=Glyma.06g020300 ID=Glyma.06g020300.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 ATGCCTTCACTAGTTGCGGAGGCATTCGAAGCCAAGGGCGCAGAACCCTTGAGCCTGAAGCCCATTTTCAGTGCCTCAGGCGTCAAGGGCAAGCGAGTAACTGCACTATCAGCAGAAGCAAATGCCCTCACTGATTTCATTCAAGCAATCATAGCTGACAAACCAGACATCGACTCTCCATTCAGCGTCCTCGATTTGGGCGTCGTAATGGGCCTCATGGACAAATGGGCCTGCAAGCTCCCCACGGTCCAGCCCTTCTACGCCGTCAAGTGCAACCCAAACCTCTCCCTCATCGGCGCGCTCGCTGCACTCGGCTCCAGCTTCGACTGCGCCAGCAAAGCCGAGATCGAATCTGTCTTGTCCCTCGGAGTCTCACCGGACAGAATCATCTACGCAAACCCATGCAAATCCGAGTCCCACATCAGATACGCCGCCTCCGTAGGTGTCAACGTCACAACCTACGACTCCCTCGACGAGGTCGAGAAAATCCGCAATTGCCACCCCACGTGCGAGTTGCTCCTCCGCATTAAACCCCCGCAAGACAGTGGAGCGCGTACCAGCTTGGGCCTCAAATACGGCGCGCTTCCCGAGGAGGTCCATGAGCTTCTCCAAGCTGCTCACGAGGCGGGGCTCAAGGTAACAGGCGTGTCCTTCCACATTGGTAGCGGCGGAGCCGACACGCGAGCCTACGACGGAGCCATATCCGCCGCTAAAAACGTATTCGAAATGGCTTCTGGGCTCGGCTTGCCCAGAATGCGCGTTCTGGACATCGGAGGCGGCTTCACCTCTGGGCCGCCGTTTGAAGCCGCGGCATTGAAAATAAACGCTGCGATTCAGGCCAGCTTCGGGAACGAGGAAGGGCTCGTGGTTATTGGCGAACCGGGTCGTTACTTCGCTGAAACGGCTTTCACGTTGGCGACGAGAATTATTGGGAAGCGCGTGAGGGGGGACGTGAGGGAGTACTGGATTGACGATGGGATTTACGGAACGCTTAATAACATAGTGTTTGATTACGCTACCGTCACGTGCATGCCACTGGCGTGCACCTCGAAACCGGAGAATCCTAGATGCAGCAGGGAATTGAATTTGAAGACTTACCCTAGCACCGTGTTTGGACCCACGTGCGATTCTATTGATACGGTTCTGAGGGATTACAAGCTGCCGGGACTGCAAGTGAACGATTGGCTAGTGTTCCCGAACATGGGTGCATATACGACGTCGTCGGGGACTAACTTCAATGGGTTTAGCTCCTCAGCCAAGTCCACGTTCCTTGCATATTCCAGCCCGGAACACAGCATGTTCTAA
>Glyma.06g020300.1.p sequence-type=predicted peptide transcript=Glyma.06g020300.1 locus=Glyma.06g020300 ID=Glyma.06g020300.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 MPSLVAEAFEAKGAEPLSLKPIFSASGVKGKRVTALSAEANALTDFIQAIIADKPDIDSPFSVLDLGVVMGLMDKWACKLPTVQPFYAVKCNPNLSLIGALAALGSSFDCASKAEIESVLSLGVSPDRIIYANPCKSESHIRYAASVGVNVTTYDSLDEVEKIRNCHPTCELLLRIKPPQDSGARTSLGLKYGALPEEVHELLQAAHEAGLKVTGVSFHIGSGGADTRAYDGAISAAKNVFEMASGLGLPRMRVLDIGGGFTSGPPFEAAALKINAAIQASFGNEEGLVVIGEPGRYFAETAFTLATRIIGKRVRGDVREYWIDDGIYGTLNNIVFDYATVTCMPLACTSKPENPRCSRELNLKTYPSTVFGPTCDSIDTVLRDYKLPGLQVNDWLVFPNMGAYTTSSGTNFNGFSSSAKSTFLAYSSPEHSMF*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
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