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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT1G17745 | AT | Annotation by Michelle Graham. TAIR10: D-3-phosphoglycerate dehydrogenase | chr1:6101157-6104979 FORWARD LENGTH=624 | SoyBase | E_val: 0 | ISS |
| GO:0006564 | GO-bp | Annotation by Michelle Graham. GO Biological Process: L-serine biosynthetic process | SoyBase | N/A | ISS |
| GO:0006569 | GO-bp | Annotation by Michelle Graham. GO Biological Process: tryptophan catabolic process | SoyBase | N/A | ISS |
| GO:0006612 | GO-bp | Annotation by Michelle Graham. GO Biological Process: protein targeting to membrane | SoyBase | N/A | ISS |
| GO:0008152 | GO-bp | Annotation by Michelle Graham. GO Biological Process: metabolic process | SoyBase | N/A | ISS |
| GO:0009684 | GO-bp | Annotation by Michelle Graham. GO Biological Process: indoleacetic acid biosynthetic process | SoyBase | N/A | ISS |
| GO:0009963 | GO-bp | Annotation by Michelle Graham. GO Biological Process: positive regulation of flavonoid biosynthetic process | SoyBase | N/A | ISS |
| GO:0010363 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of plant-type hypersensitive response | SoyBase | N/A | ISS |
| GO:0042742 | GO-bp | Annotation by Michelle Graham. GO Biological Process: defense response to bacterium | SoyBase | N/A | ISS |
| GO:0055114 | GO-bp | Annotation by Michelle Graham. GO Biological Process: oxidation-reduction process | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0005829 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: cytosol | SoyBase | N/A | ISS |
| GO:0009507 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast | SoyBase | N/A | ISS |
| GO:0009570 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast stroma | SoyBase | N/A | ISS |
| GO:0000166 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: nucleotide binding | SoyBase | N/A | ISS |
| GO:0004617 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: phosphoglycerate dehydrogenase activity | SoyBase | N/A | ISS |
| GO:0005515 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: protein binding | SoyBase | N/A | ISS |
| GO:0016597 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: amino acid binding | SoyBase | N/A | ISS |
| GO:0016616 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor | SoyBase | N/A | ISS |
| GO:0048037 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: cofactor binding | SoyBase | N/A | ISS |
| GO:0051287 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: NAD binding | SoyBase | N/A | ISS |
| KOG0068 | KOG | D-3-phosphoglycerate dehydrogenase, D-isomer-specific 2-hydroxy acid dehydrogenase superfamily | JGI | ISS | |
| PTHR10996 | Panther | 2-HYDROXYACID DEHYDROGENASE | JGI | ISS | |
| PTHR10996:SF20 | Panther | ERYTHRONATE-4-PHOSPHATE DEHYDROGENASE | JGI | ISS | |
| PF00389 | PFAM | D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain | JGI | ISS | |
| PF01842 | PFAM | ACT domain | JGI | ISS | |
| PF02826 | PFAM | D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain | JGI | ISS | |
| UniRef100_G7JVK0 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Phosphoglycerate dehydrogenase n=1 Tax=Medicago truncatula RepID=G7JVK0_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_I1KVS6 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1KVS6_SOYBN | SoyBase | E_val: 0 | ISS |
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Glyma08g23860 not represented in the dataset |
Glyma08g23860 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 |
|---|---|---|
| Glyma07g00540 | 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.08g223300 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma08g23860.1 sequence type=CDS gene model=Glyma08g23860 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGCATCCTCAAGAGCTTGTACCAAACCCATCATCTTCCTCTCTGCCTTCACCAAGTCAAAGTTCTCTCATCAATATCATGTCTCCTTCATCAACACCACCTCCCACATACCCATCTACCCAAAGCTCTCTCAGCAACGTTCCTTGGTGGTCAACAACGTATTGAAAACAGTTGAGCCGACAGAAAGCTCTTTGCGGAGCTCCAACTCCGAGGAATTTGGGTCTCTGGGTGAAAAGCCCACCATCCTGGTCTCCGAGAGACTTGGAGAGGCAGGACTGCAGGTGTTACGCGGTGTTGGACACGTGGAATGCGCGTATGAGCTCTCGCAGGAGGAGTTGTGCACGAAGATCTCGTGCTGTGACGCTCTTATAGTGAGGAGCGGGACGAAGGTGACAAGGGAAGTGTTTGAAGCTGCCAAAGGAAGGTTGAAGGTTGTGGGAAGAGCCGGCGTGGGGATTGACAACGTGGATTTGCAAGCAGCCACCGAATTTGGTTGCCTTGTCGTTAATGCGCCAACTGCAAACACTATTGCCGCTGCCGAGCATGGGATCGCTCTCCTCGCTGCCATGGCCCGCAACGTTGCCCAGGCTGACGCCTCCACCAAAGCTGGAAAATGGCAGAGAAGCAAGTATGTGGGTGTTTCCATGGTTGGAAAGACATTGGCAGTGATGGGTTTCGGAAAAGTTGGATCTGAAGTGGCCAGGCGAGCCAAAGGGTTGGGCATGCACGTGATTGCTCATGACCCCTATGCTCCTGCTGATAGGGCACGTGCTATTGGTGTGGATCTGGTGTCCTTTGATCAGGCCATCACCACTGCAGATTTCATCTCCCTCCATATGCCACTCACTCCAACTACTAACAAGATCTTCAATGACAACACTTTTGCAAAGATGAAGAAGGGTGTTCGCATTGTCAACGTTGCAAGAGGAGGTGTTATTGACGAAGATGCATTAGTAAGAGCACTCGACAGTGGAATCGTTGCTCAGGCTGCTCTTGATGTCTTCACCGAGGAGCCCCCTTCCAAAGACAGTAAGTTAGTGCAACACGAGAATGTCACCGTTACCCCTCATCTTGGAGCTAGCACCAAAGAGGCACAGGAGGGTGTAGCTATTGAAATAGCAGAGGCTGTGCTTGGAGCATTGAAGGGGGAACTTTCAGCCACTGCTGTCAATGCTCCTATGGTTGCTCCTGAGGTGTTGTCAGAATTGGCCCCATATGTGGTGCTGGCTGAGAAGCTGGGCAGGCTAGCTGTGCAGTTGGTGTGTGGAGGAAGTGGAATCAAATCTGTGAAGGTTGTTTATCGATCAGCTAGGGGCCCAGATGACTTGGACACTAGACTTCTGCGAGCCATGGTTACAAAAGGCCTCATTGAACCAATTTCAAACACCATTGTGAACCTTGTGAATGCGGATTTCATAGCCAAGCAGAAAGGGCTTCGCATAAGTGAGGAAAGAGTGGTTGTTGATTCATCTCCTGAGCTGCCTGTTGATTCAATCCAGGTACAGATATCTAGCGTGGACTCCAAATTTGCGAGTGCTGTATCAGAGAGTGGTCAGATAAGCATTGACGGAAGAGTCAAGTTTGGAGAACCCCACCTGACATGTGTTGGATCTTTCGATGTGGATGTGAGCTTAGAAGGGAATCTAATCCTGTGCCGACAGGTGGATCAGCCCGGCATGATTGGTCGTGTTGGAAACATACTGGGTGAACAAAACGTGAATGTGAGCTTTATGAGTGTGGGAAGGACATCGCGTAGGAACAAGGCTATTATGGCTATTGGTGTCGATGAAGAACCAAACAAGGAGGCTCTTGACAATATTGGAGCCGTGTCTGCCATTGAAGAGTTCGTCTTCCTCAAGCTCTAG
>Glyma08g23860.1 sequence type=predicted peptide gene model=Glyma08g23860 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MASSRACTKPIIFLSAFTKSKFSHQYHVSFINTTSHIPIYPKLSQQRSLVVNNVLKTVEPTESSLRSSNSEEFGSLGEKPTILVSERLGEAGLQVLRGVGHVECAYELSQEELCTKISCCDALIVRSGTKVTREVFEAAKGRLKVVGRAGVGIDNVDLQAATEFGCLVVNAPTANTIAAAEHGIALLAAMARNVAQADASTKAGKWQRSKYVGVSMVGKTLAVMGFGKVGSEVARRAKGLGMHVIAHDPYAPADRARAIGVDLVSFDQAITTADFISLHMPLTPTTNKIFNDNTFAKMKKGVRIVNVARGGVIDEDALVRALDSGIVAQAALDVFTEEPPSKDSKLVQHENVTVTPHLGASTKEAQEGVAIEIAEAVLGALKGELSATAVNAPMVAPEVLSELAPYVVLAEKLGRLAVQLVCGGSGIKSVKVVYRSARGPDDLDTRLLRAMVTKGLIEPISNTIVNLVNADFIAKQKGLRISEERVVVDSSPELPVDSIQVQISSVDSKFASAVSESGQISIDGRVKFGEPHLTCVGSFDVDVSLEGNLILCRQVDQPGMIGRVGNILGEQNVNVSFMSVGRTSRRNKAIMAIGVDEEPNKEALDNIGAVSAIEEFVFLKL*
| 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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