SoyBase
SoyBase transitions to NEW site on 10/1/2024
Integrating Genetics and Genomics to Advance Soybean Research
SoyBase
SoyBase transitions to NEW site on 10/1/2024
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A newer version of this gene model can be found here:
| Database ID | Annotation Type | Annotation Description | Annotation Source | Match Score | Evidence Code |
|---|---|---|---|---|---|
| AT2G40550 | AT | Annotation by Michelle Graham. TAIR10: E2F target gene 1 | chr2:16934927-16938033 FORWARD LENGTH=589 | SoyBase | E_val: 0 | ISS |
| GO:0000724 | GO-bp | Annotation by Michelle Graham. GO Biological Process: double-strand break repair via homologous recombination | SoyBase | N/A | ISS |
| GO:0006260 | GO-bp | Annotation by Michelle Graham. GO Biological Process: DNA replication | SoyBase | N/A | ISS |
| GO:0006261 | GO-bp | Annotation by Michelle Graham. GO Biological Process: DNA-dependent DNA replication | SoyBase | N/A | ISS |
| GO:0006270 | GO-bp | Annotation by Michelle Graham. GO Biological Process: DNA replication initiation | SoyBase | N/A | ISS |
| GO:0006275 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of DNA replication | SoyBase | N/A | ISS |
| GO:0006301 | GO-bp | Annotation by Michelle Graham. GO Biological Process: postreplication repair | SoyBase | N/A | ISS |
| GO:0006306 | GO-bp | Annotation by Michelle Graham. GO Biological Process: DNA methylation | SoyBase | N/A | ISS |
| GO:0007062 | GO-bp | Annotation by Michelle Graham. GO Biological Process: sister chromatid cohesion | SoyBase | N/A | ISS |
| GO:0008283 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cell proliferation | SoyBase | N/A | ISS |
| GO:0009555 | GO-bp | Annotation by Michelle Graham. GO Biological Process: pollen development | SoyBase | N/A | ISS |
| GO:0010090 | GO-bp | Annotation by Michelle Graham. GO Biological Process: trichome morphogenesis | SoyBase | N/A | ISS |
| GO:0016444 | GO-bp | Annotation by Michelle Graham. GO Biological Process: somatic cell DNA recombination | SoyBase | N/A | ISS |
| GO:0022402 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cell cycle process | SoyBase | N/A | ISS |
| GO:0031047 | GO-bp | Annotation by Michelle Graham. GO Biological Process: gene silencing by RNA | SoyBase | N/A | ISS |
| GO:0042023 | GO-bp | Annotation by Michelle Graham. GO Biological Process: DNA endoreduplication | SoyBase | N/A | ISS |
| GO:0051302 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of cell division | SoyBase | N/A | ISS |
| GO:0051567 | GO-bp | Annotation by Michelle Graham. GO Biological Process: histone H3-K9 methylation | SoyBase | N/A | ISS |
| GO:0051726 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of cell cycle | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0009941 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast envelope | SoyBase | N/A | ISS |
| GO:0042555 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: MCM complex | SoyBase | N/A | ISS |
| GO:0043601 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nuclear replisome | SoyBase | N/A | ISS |
| GO:0005515 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: protein binding | SoyBase | N/A | ISS |
| KOG2545 | KOG | Conserved membrane protein | JGI | ISS | |
| PTHR13489 | Panther | UNCHARACTERIZED | JGI | ISS | |
| PF09739 | PFAM | Conserved membrane protein (DUF2044) | JGI | ISS | |
| UniRef100_I1JYB4 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JYB4_SOYBN | SoyBase | E_val: 0 | ISS |
| UniRef100_I6UEI0 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: E2F target protein 1 n=1 Tax=Beta vulgaris RepID=I6UEI0_BETVU | SoyBase | E_val: 0 | ISS |
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Glyma04g39990 not represented in the dataset |
Glyma04g39990 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 |
| Paralog | Evidence | Comments |
|---|---|---|
| Glyma06g14860 | 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 0.3. |
| Corresponding Name | Annotation Version | Evidence | Comments |
|---|---|---|---|
| Glyma.04g222000 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma04g39990.1 sequence type=CDS gene model=Glyma04g39990 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGTGGGCCCACAGTACGATTTTCTGGCGAACCCTTTGGGCGCCGTCAGATCCACCTTCGACGCCGCCGTAGCCTCCGTTCCCGATCCCTCCGCCTTCGACGGCCGCGACTGGGGCGTCTTACCCCTCTTCCAACACTTCCTCTCAGATCCGTCCAGACTCTCTCAGGTTCCTCTTCTGACCCCTGCCACCATCCAATGGGTGAAGCCCAATACTCTCGTTCGGTTTCGCGGGATGATACAAGACATGCTCGGGAATGAATTTTACGTTGGCGCTTATAAGGATGGTTCGGTGTGGAGGACCAACAAGTTTATGGATGCTTCTCAATCTCTTACGGCTTCTTCGGCGGATATGCGAATCTGGGAACGTCGACTGCTTTATTGTGTTCCGGTTCCGGGATTGAGTCCATGGACTCAAGTTTCAACTGAAGAATTTGGCCATCTATCTATGGATCGGACATCAGAGAATAGAGAAAAACGGAGGAGAGAAGATGATGAGTCTTCTGATATGCCTGTCTCTGGTGATGAGGTTCAGAATTCTCCAAATACTAAAAGAATGAGAGAAGGTGAACACTCTTCCCTTGCTTCTAATTCTCGAGGAGCTGCGACTGAGATTGCCAGCTCTGGTACCAGTTTGGTGTCTGGTCTTGATAGCAATTCACCTCCCTGTCTTGTGAAGATATATGATTCTCCAGATTCTGAACTGAAACTGAATGACATTTTTGAGTTTGTGGGTATCCTTACATCTGACCTAGAGCTTGAAGAGGACAATGAAGATTGTGATTTATCAGATGGGATTTCTGAGGATCCTTTGTGCCATCTCCCACCTAGCAAGGTGCCATACCTTCATTGTTTTATTCACAGGAAATTAGCGGTTCACGACTTCCTTCAGCATAACCCTATTGTAGAGCCAAGACCCAACTTGGTCAGAGAAATCAGGGAAGCATTGCTAAGGCATCTCACGGCTGTTCTTGGCAATGATGATTTCGCTACTCATTTCATGTTGCTGCATCTTCTATCCAACGTGCATGCTAGAGCAGATGATCTTGCTGTGGGAAAGCTTTCATTAAATCTTACTTGTTTTAGCAAAGAAATTGTGTCTGTATTTGGAAAACCATTAAGCGCTGCTCTGAAGAACCTCCTGCCATTCACATTTTACATACCCCTTACAGTTGAATATTTGAATACTGTTTCACTTGTGCCAAAAAAGAATTATGATACTAACAGGCTGGAAACTGGAGTCTTTCAACTAGCTGAAGGTTCACACTTGATTGTTGATGAGACCAAACTAGAAGCTGGAACGCTCAACTCTGTAGGGGTAGAGAATACAAGGCTGCTGAAAAATTTAATGGAATTGCAAAAGGTTGAATATGATTTCAAGTACTATAAAGTGGATATGGCAACGGATTTCCAACTGCTAGTTTTGTCAGAGGGGAAATCAAATATCTTGCCAGCTGATGTAATTGTACCGTTCCGGCCTTCTGCAACCAGTTGCTCTGAAGCTGTGACTGCAGAAGCTTTGGAGGCTTGGAGGTGGTATTTGGCCACTGTTAGACAGCTATCACACACTATTGAACCAGAAATGCAGAAGGTGGTAGAAACTGATCTAGTTGCAGCAAGACAAGCAGACAGGAGCTTGAGCTCCCAAGACTTAAGCAGATTGGTAACAATGGGCCGTCTCATGTCATTGAGCTATGGTGAGACCAGCTTGTCACTAGAACATTGGCAAACGGTCAAGGAACTAGAGAGGCTGCGAAGAGAGAGGCTACAATGA
>Glyma04g39990.1 sequence type=predicted peptide gene model=Glyma04g39990 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MVGPQYDFLANPLGAVRSTFDAAVASVPDPSAFDGRDWGVLPLFQHFLSDPSRLSQVPLLTPATIQWVKPNTLVRFRGMIQDMLGNEFYVGAYKDGSVWRTNKFMDASQSLTASSADMRIWERRLLYCVPVPGLSPWTQVSTEEFGHLSMDRTSENREKRRREDDESSDMPVSGDEVQNSPNTKRMREGEHSSLASNSRGAATEIASSGTSLVSGLDSNSPPCLVKIYDSPDSELKLNDIFEFVGILTSDLELEEDNEDCDLSDGISEDPLCHLPPSKVPYLHCFIHRKLAVHDFLQHNPIVEPRPNLVREIREALLRHLTAVLGNDDFATHFMLLHLLSNVHARADDLAVGKLSLNLTCFSKEIVSVFGKPLSAALKNLLPFTFYIPLTVEYLNTVSLVPKKNYDTNRLETGVFQLAEGSHLIVDETKLEAGTLNSVGVENTRLLKNLMELQKVEYDFKYYKVDMATDFQLLVLSEGKSNILPADVIVPFRPSATSCSEAVTAEALEAWRWYLATVRQLSHTIEPEMQKVVETDLVAARQADRSLSSQDLSRLVTMGRLMSLSYGETSLSLEHWQTVKELERLRRERLQ*
| 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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