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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 |
|---|---|---|---|---|---|
| AT5G08565.1 | AT | Transcription initiation Spt4-like protein | JGI | N/A | IEA |
| GO:0006325 | GO-bp | chromatin organization | EnsemblGenomes | N/A | IEA |
| GO:0006351 | GO-bp | transcription, DNA-templated | EnsemblGenomes | N/A | IEA |
| GO:0006355 | GO-bp | regulation of transcription, DNA-templated | EnsemblGenomes | N/A | IEA |
| GO:0006397 | GO-bp | mRNA processing | EnsemblGenomes | N/A | IEA |
| GO:0032786 | GO-bp | positive regulation of DNA-templated transcription, elongation | EnsemblGenomes | N/A | IEA |
| GO:0034243 | GO-bp | regulation of transcription elongation from RNA polymerase II promoter | EnsemblGenomes | N/A | IEA |
| GO:0005634 | GO-cc | nucleus | EnsemblGenomes | N/A | IEA |
| GO:0032044 | GO-cc | DSIF complex | EnsemblGenomes | N/A | IEA |
| GO:0000993 | GO-mf | RNA polymerase II core binding | EnsemblGenomes | N/A | IEA |
| GO:0003700 | GO-mf | DNA binding transcription factor activity | EnsemblGenomes | N/A | IEA |
| GO:0003727 | GO-mf | single-stranded RNA binding | EnsemblGenomes | N/A | IEA |
| GO:0008270 | GO-mf | zinc ion binding | EnsemblGenomes | N/A | IEA |
| KOG3490 | KOG | Transcription elongation factor SPT4 | JGI | N/A | IEA |
| PTHR12882 | Panther | SUPPRESSOR OF TY 4 | JGI | N/A | IEA |
| PF06093 | PFAM | Spt4/RpoE2 zinc finger | JGI | N/A | IEA |
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Glyma.07g274100 not represented in the dataset |
Glyma.07g274100 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.17g000400 | 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 |
|---|---|---|---|
| Glyma07g40390 | Wm82.a1.v1.1 | IGC | As supplied by JGI |
>Glyma.07g274100.1 sequence-type=CDS polypeptide=Glyma.07g274100.1.p locus=Glyma.07g274100 ID=Glyma.07g274100.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 ATGGCAACTGCACCTGCACAAATTCCTACAAGCTTTGGTCATGAGTTGAGGGCATGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGTTCAGAGAGTCAGGCTGTGAGAACTGCTCATTCTTTAAGATGGAAGAAGATCATGAGCTAGTTGTTGATTGCACTACTCCCAATTTTAATGGGATCATTTCAGTTATGGATCCAAATCGGAGTTGGGCTGCCCGTTGGTTGCGCATTGGAAAGTTTGTTCCTGGTGTTTATACTCTTGCTGTCTCAGAGGCTCTTCCTGAAGAGATGCAGGCTATATGTGAAGACGAGCGGGTGCAGTATATCCCTCCCAAACGTTTGTGA
>Glyma.07g274100.1.p sequence-type=predicted peptide transcript=Glyma.07g274100.1 locus=Glyma.07g274100 ID=Glyma.07g274100.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 MATAPAQIPTSFGHELRACLRCRLVKTYDQFRESGCENCSFFKMEEDHELVVDCTTPNFNGIISVMDPNRSWAARWLRIGKFVPGVYTLAVSEALPEEMQAICEDERVQYIPPKRL*
| 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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