SoyBase
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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A newer version of this gene model can be found here:
| Database ID | Annotation Type | Annotation Description | Annotation Source | Match Score | Evidence Code |
|---|---|---|---|---|---|
| AT4G03510 | AT | Annotation by Michelle Graham. TAIR10: RING membrane-anchor 1 | chr4:1557905-1558654 REVERSE LENGTH=249 | SoyBase | E_val: 3.00E-47 | ISS |
| GO:0006511 | GO-bp | Annotation by Michelle Graham. GO Biological Process: ubiquitin-dependent protein catabolic process | SoyBase | N/A | ISS |
| GO:0032527 | GO-bp | Annotation by Michelle Graham. GO Biological Process: protein exit from endoplasmic reticulum | SoyBase | N/A | ISS |
| GO:0032940 | GO-bp | Annotation by Michelle Graham. GO Biological Process: secretion by cell | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0005783 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: endoplasmic reticulum | SoyBase | N/A | ISS |
| GO:0016020 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: membrane | SoyBase | N/A | ISS |
| GO:0004842 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: ubiquitin-protein ligase activity | SoyBase | N/A | ISS |
| GO:0008270 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: zinc ion binding | SoyBase | N/A | ISS |
| KOG0823 | KOG | Predicted E3 ubiquitin ligase | JGI | ISS | |
| PTHR12313 | Panther | RNF5 | JGI | ISS | |
| PF00097 | PFAM | Zinc finger, C3HC4 type (RING finger) | JGI | ISS | |
| UniRef100_B9RZ87 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Rnf5, putative n=1 Tax=Ricinus communis RepID=B9RZ87_RICCO | SoyBase | E_val: 1.00E-94 | ISS |
| UniRef100_I1M0B1 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1M0B1_SOYBN | SoyBase | E_val: 2.00E-177 | ISS |
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Glyma13g24840 not represented in the dataset |
Glyma13g24840 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 |
|---|---|---|
| Glyma07g31580 | 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.13g179900 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma13g24840.1 sequence type=CDS gene model=Glyma13g24840 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGCCTTTGAGGAGCACTATGTTTCTCAGGAATTGAAAACCATCCCCAGCTCCATGACAGTGACAGAAAATTTGGATGGGTGTTTTGATTGCAACATCTGCTTAGATTTTGCACATGAACCAGTGGTCACCCTTTGTGGCCACCTATACTGCTGGCCCTGCATCTACAAGTGGCTCCATGTCCAAAGTGCTTCTCTTGCACCAGATGAGCACCCACAATGCCCTGTTTGCAAAGATGACATATGCCACACCACAATGGTTCCTCTCTATGGCCGTGGCCAGGGCATAGCTCATAGTGACCATGATGGAAAGGCATCATCCTATAGAGGCAGTTGTATACCACCAAGACCACCTGCTTTGGGTGCTCAATCGCTCATTGCAACATCATCTCAAAGTGTTCCATATCGCAACACTTATCAAAATCAGCATTTATACCAAGAAGAGGATGCATCATCATCACAAATGCTGAACCCTGGTGCCACCATTTTGGCACCAGGGTTCCCCCACCTTGTGTTTGGGATGTTTGGAGAGATGTTTTATACCAGAGTCTTTGGGAACTCGGAAAATTTATACACCCACCCAAATTCTTATCACCTGGGGGAAAGTAATAATAGTCCCAGGTTGAGAAGGCAAGAGATGCAAGCAAACAAATCATTGAACAGAATTTCAATTTTTCTGTTTTGTTGTTTCCTTCTGTGTCTAATCGTTTTCTGA
>Glyma13g24840.1 sequence type=predicted peptide gene model=Glyma13g24840 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MAFEEHYVSQELKTIPSSMTVTENLDGCFDCNICLDFAHEPVVTLCGHLYCWPCIYKWLHVQSASLAPDEHPQCPVCKDDICHTTMVPLYGRGQGIAHSDHDGKASSYRGSCIPPRPPALGAQSLIATSSQSVPYRNTYQNQHLYQEEDASSSQMLNPGATILAPGFPHLVFGMFGEMFYTRVFGNSENLYTHPNSYHLGESNNSPRLRRQEMQANKSLNRISIFLFCCFLLCLIVF*
| 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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