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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT5G09310 | AT | Annotation by Michelle Graham. TAIR10: CONTAINS InterPro DOMAIN/s: Gamma-secretase aspartyl protease complex, presenilin enhancer-2 subunit (InterPro:IPR019379); Has 168 Blast hits to 168 proteins in 71 species: Archae - 0; Bacteria - 0; Metazoa - 126; Fungi - 0; Plants - 36; Viruses - 0; Other Eukaryotes - 6 (source: NCBI BLink). | chr5:2887403-2888501 REVERSE LENGTH=146 | SoyBase | E_val: 9.00E-59 | ISS |
| GO:0008150 | GO-bp | Annotation by Michelle Graham. GO Biological Process: biological process | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0003674 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: molecular function | SoyBase | N/A | ISS |
| KOG3402 | KOG | Predicted membrane protein | JGI | ISS | |
| PTHR16318 | Panther | GAMMA-SECRETASE SUBUNIT PEN-2 | JGI | ISS | |
| PF10251 | PFAM | Presenilin enhancer-2 subunit of gamma secretase | JGI | ISS | |
| UniRef100_B9SA23 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: GDP-mannose transporter, putative n=1 Tax=Ricinus communis RepID=B9SA23_RICCO | SoyBase | E_val: 2.00E-58 | ISS |
| UniRef100_I1JY18 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JY18_SOYBN | SoyBase | E_val: 1.00E-102 | ISS |
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Glyma04g39050 not represented in the dataset |
Glyma04g39050 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 |
|---|---|---|
| Glyma06g15920 | 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.04g212600 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma04g39050.4 sequence type=transcript gene model=Glyma04g39050 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high TGCTACTTTTTGTGTTTTCGATTCGAACACGGAAACAGATAAGATTTAAGACAATGGAGGATTAATCTGAATTTAAGTCCCGCTGGTCTTTGTAATTACTACGCCATATCAAGCAAAATCGAAGAAACGCGACGATCCACTTGCACAGTAAAAATCCGCGGTGGAGGCAGATCACATAGATGGAGGCACAGTCTCAGAGCAACAATCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTCATCGGAATAATTCGGTAGCGTCATCGATGCCGCTGTGGCCAACGATCGACGGCCCATTGGGCCTGTCGGAGGAAGAGTCAGTGGGCTACGCTCGCAGGTTCTACACTTTCGGCTTCGCTCTTCTCCCTCTCCTTTGGGCCGTCAATTGCTTCTACTTCTGGCCCGTCCTTCGCCACTCCCACTCCTTCCCTCGCATTCGCCCCTATGTTGTTGGATCTGCAATTGGGTTTGCAGTATGTGCGACACTTCTCAGTTCTTGGAGTCTAACATTTGCCATTGGAGGGGAACGCCTCTTCGGCCCTGTTTGGGATCAATTGGTTATGTACAATCTTGCTGATAGGTTAGGCTTAACAGGTTGGAGCTAGTTGTGTGGCACCTCTGATACAAATATTTTGATCTTTTATTACCACACTTACCTTCTTCCCTGTTTTTTGAATGCATCTGCATTACCTATACATTTTACTATATTCTATCATGAAACTAGTAGTGAATTTTATCTTGCTGCCACAGTTGATAGATAACAAGCAATGTTTTGGAAGAGGATATAGTTCTTGGTGTCTTTACTTTATTTGTATGTGTGTGTGTGTGTTATATTATGT
>Glyma04g39050.3 sequence type=CDS gene model=Glyma04g39050 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGAGGCACAGTCTCAGAGCAACAATCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTCATCGGAATAATTCGGTAGCGTCATCGATGCCGCTGTGGCCAACGATCGACGGCCCATTGGGCCTGTCGGAGGAAGAGTCAGTGGGCTACGCTCGCAGGTTCTACACTTTCGGCTTCGCTCTTCTCCCTCTCCTTTGGGCCGTCAATTGCTTCTACTTCTGGCCCGTCCTTCGCCACTCCCACTCCTTCCCTCGCATTCGCCCCTATGTTGTTGGATCTGCAATTGGGTTTGCAGTATGTGCGACACTTCTCAGTTCTTGGAGTCTAACATTTGCCATTGGAGGGGAACGCCTCTTCGGCCCTGTTTGGGATCAATTGGTTATGTACAATCTTGCTGATAGGTTAGGCTTAACAGGTTGGAGCTAG >Glyma04g39050.4 sequence type=CDS gene model=Glyma04g39050 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGAGGCACAGTCTCAGAGCAACAATCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTCATCGGAATAATTCGGTAGCGTCATCGATGCCGCTGTGGCCAACGATCGACGGCCCATTGGGCCTGTCGGAGGAAGAGTCAGTGGGCTACGCTCGCAGGTTCTACACTTTCGGCTTCGCTCTTCTCCCTCTCCTTTGGGCCGTCAATTGCTTCTACTTCTGGCCCGTCCTTCGCCACTCCCACTCCTTCCCTCGCATTCGCCCCTATGTTGTTGGATCTGCAATTGGGTTTGCAGTATGTGCGACACTTCTCAGTTCTTGGAGTCTAACATTTGCCATTGGAGGGGAACGCCTCTTCGGCCCTGTTTGGGATCAATTGGTTATGTACAATCTTGCTGATAGGTTAGGCTTAACAGGTTGGAGCTAG
>Glyma04g39050.3 sequence type=predicted peptide gene model=Glyma04g39050 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MEAQSQSNNPNPNPNPNPNPNPNPNPNPHRNNSVASSMPLWPTIDGPLGLSEEESVGYARRFYTFGFALLPLLWAVNCFYFWPVLRHSHSFPRIRPYVVGSAIGFAVCATLLSSWSLTFAIGGERLFGPVWDQLVMYNLADRLGLTGWS* >Glyma04g39050.4 sequence type=predicted peptide gene model=Glyma04g39050 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MEAQSQSNNPNPNPNPNPNPNPNPNPNPHRNNSVASSMPLWPTIDGPLGLSEEESVGYARRFYTFGFALLPLLWAVNCFYFWPVLRHSHSFPRIRPYVVGSAIGFAVCATLLSSWSLTFAIGGERLFGPVWDQLVMYNLADRLGLTGWS*
| 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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