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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 |
|---|---|---|---|---|---|
| AT3G54250.1 | AT | GHMP kinase family protein | JGI | N/A | IEA |
| GO:0006629 | GO-bp | lipid metabolic process | EnsemblGenomes | N/A | IEA |
| GO:0006694 | GO-bp | steroid biosynthetic process | EnsemblGenomes | N/A | IEA |
| GO:0008202 | GO-bp | steroid metabolic process | EnsemblGenomes | N/A | IEA |
| GO:0008299 | GO-bp | isoprenoid biosynthetic process | EnsemblGenomes | N/A | IEA |
| GO:0016126 | GO-bp | sterol biosynthetic process | EnsemblGenomes | N/A | IEA |
| GO:0019287 | GO-bp | isopentenyl diphosphate biosynthetic process, mevalonate pathway | EnsemblGenomes | N/A | IEA |
| GO:0005829 | GO-cc | cytosol | EnsemblGenomes | N/A | IEA |
| GO:0000166 | GO-mf | nucleotide binding | EnsemblGenomes | N/A | IEA |
| GO:0004163 | GO-mf | diphosphomevalonate decarboxylase activity | EnsemblGenomes | N/A | IEA |
| GO:0005524 | GO-mf | ATP binding | EnsemblGenomes | N/A | IEA |
| GO:0005524 | GO-mf | ATP binding | JGI | N/A | IEA |
| GO:0016829 | GO-mf | lyase activity | EnsemblGenomes | N/A | IEA |
| GO:0016831 | GO-mf | carboxy-lyase activity | EnsemblGenomes | N/A | IEA |
| KOG2833 | KOG | Mevalonate pyrophosphate decarboxylase | JGI | N/A | IEA |
| PTHR10977 | Panther | DIPHOSPHOMEVALONATE DECARBOXYLASE | JGI | N/A | IEA |
| PTHR10977:SF2 | Panther | DIPHOSPHOMEVALONATE DECARBOXYLASE | JGI | N/A | IEA |
| PF00288 | PFAM | GHMP kinases N terminal domain | JGI | N/A | IEA |
| PWY-5910 | SoyCyc9 | superpathway of geranylgeranyldiphosphate biosynthesis I (via mevalonate) | Plant Metabolic Network | ISS | |
| PWY-922 | SoyCyc9 | mevalonate pathway I | Plant Metabolic Network | ISS | |
| GN7V-63310 | SoyCyc9-rxn | diphosphomevalonate decarboxylase | Plant Metabolic Network | ISS |
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Glyma.20g109900 not represented in the dataset |
Glyma.20g109900 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.10g279800 | 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 |
|---|---|---|---|
| Glyma20g24400 | Wm82.a1.v1.1 | IGC | As supplied by JGI |
>Glyma.20g109900.1 sequence-type=CDS polypeptide=Glyma.20g109900.1.p locus=Glyma.20g109900 ID=Glyma.20g109900.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 ATGATGGCGAGTGAGTCGCAAAACTGGGTGTTCATGGTCACTGCACAGACACCAACCAACATTGCCGTTATCAAGTATTGGGGGAAAAGAGACGAAACCCTCATCTTACCGGTTAACGACAGTATCAGTGTCACTCTCGATCCCAGCCACCTCTGCACCACCACCACTGCTGCCGTCAGTCCCGCTTTCCACCAAGATCGCATGTGGCTCAATGGAAAGGAGATTTCTCTTTCTGGGGGCAGGTTCCAGAGCTGTTTAAGGGAGATCCGTGCTCGTGCTTGTGATGTTGAGGATGAAACAAAGGGTATAAAGATCACAAAGGAGGATTGGGGCAAATTGCATGTACACATTGCTTCGTACAACAACTTCCCTACTGCAGCAGGACTGGCTTCATCAGCTGCCGGTTTTGCATGCCTTGCTTATGCCCTTGGGAAGCTAATGAATGTCAAAGAAGATGAAAGCCAACTATCTGCTATCGCAAGGCAAGGATCAGGTAGTGCTTGCCGCAGCTTATTTGGGGGATTTGTCAAGTGGATAATGGGAAAAGAGGATAATGGCAGTGATAGTCTTGCAGTTCAACTTACTGATGAAAAGCACTGGGATGATCTTGTTATTGTTATTGCCGTGGTTAGTTCACGGCAGAAGGAAACAAGTAGCACCACTGGAATGCGTGAGAGTGTTGAAACAAGTTTGCTTTTACAACACAGGGCAAAGGAAATTGTGCCAAAGCGGATATTGCAAATGGAAGAAGCCATTAAAAATCGTGATTTTGCATCTTTTTCGCAATTGACCTGTGCTGATAGCAACCAGTTTCATGCAGTCTGCCTGGACACATGCCCCCCTATATTTTACATGAACGATACATCACACAGAATAATCAGCATCGTTGAAAAGTGGAACCGTTCAGAAGAAGCTCCCCAGGTAGCTTATACATTTGATGCGGGGCCAAATGCTGTTCTAATTGCACGCAACAGGAAAGCTGCTACCTCTTTGATTCAGAGGCTGCTTTACTACTTCCCTCCAAATTCAGATGACCTCAGCAGTTACATTATTGGGGACAAGTCAATTGCAAAAGATGCTGGGATCAATGGAATACAGGATGTAGAAGCTTTGCCGCCACCTCCAGAAATTAAAGATAATATTCCATCACAAAAATACAAGGGGGATGTCAGTTACTTCATATGTACCAGACCTGGAAGGGGACCTGTTTTGCTTTCTGATAGCATTCAAGCACTTCTGAACGATGAAACTGGGCTTCCCAAGTAA
>Glyma.20g109900.1.p sequence-type=predicted peptide transcript=Glyma.20g109900.1 locus=Glyma.20g109900 ID=Glyma.20g109900.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 MMASESQNWVFMVTAQTPTNIAVIKYWGKRDETLILPVNDSISVTLDPSHLCTTTTAAVSPAFHQDRMWLNGKEISLSGGRFQSCLREIRARACDVEDETKGIKITKEDWGKLHVHIASYNNFPTAAGLASSAAGFACLAYALGKLMNVKEDESQLSAIARQGSGSACRSLFGGFVKWIMGKEDNGSDSLAVQLTDEKHWDDLVIVIAVVSSRQKETSSTTGMRESVETSLLLQHRAKEIVPKRILQMEEAIKNRDFASFSQLTCADSNQFHAVCLDTCPPIFYMNDTSHRIISIVEKWNRSEEAPQVAYTFDAGPNAVLIARNRKAATSLIQRLLYYFPPNSDDLSSYIIGDKSIAKDAGINGIQDVEALPPPPEIKDNIPSQKYKGDVSYFICTRPGRGPVLLSDSIQALLNDETGLPK*
| 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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