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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 |
|---|---|---|---|---|---|
| AT1G60080.1 | AT | 3'-5'-exoribonuclease family protein | JGI | N/A | IEA |
| GO:0000467 | GO-bp | exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) | EnsemblGenomes | N/A | IEA |
| GO:0034427 | GO-bp | nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' | EnsemblGenomes | N/A | IEA |
| GO:0034473 | GO-bp | U1 snRNA 3'-end processing | EnsemblGenomes | N/A | IEA |
| GO:0034475 | GO-bp | U4 snRNA 3'-end processing | EnsemblGenomes | N/A | IEA |
| GO:0034476 | GO-bp | U5 snRNA 3'-end processing | EnsemblGenomes | N/A | IEA |
| GO:0043928 | GO-bp | exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay | EnsemblGenomes | N/A | IEA |
| GO:0071028 | GO-bp | nuclear mRNA surveillance | EnsemblGenomes | N/A | IEA |
| GO:0071035 | GO-bp | nuclear polyadenylation-dependent rRNA catabolic process | EnsemblGenomes | N/A | IEA |
| GO:0071038 | GO-bp | nuclear polyadenylation-dependent tRNA catabolic process | EnsemblGenomes | N/A | IEA |
| GO:0071042 | GO-bp | nuclear polyadenylation-dependent mRNA catabolic process | EnsemblGenomes | N/A | IEA |
| GO:0000176 | GO-cc | nuclear exosome (RNase complex) | EnsemblGenomes | N/A | IEA |
| GO:0000177 | GO-cc | cytoplasmic exosome (RNase complex) | EnsemblGenomes | N/A | IEA |
| GO:0017091 | GO-mf | AU-rich element binding | EnsemblGenomes | N/A | IEA |
| KOG1613 | KOG | Exosomal 3'-5' exoribonuclease complex, subunit Rrp43 | JGI | N/A | IEA |
| PTHR11097 | Panther | EXOSOME COMPLEX EXONUCLEASE (RIBOSOMAL RNA PROCESSING PROTEIN) | JGI | N/A | IEA |
| PTHR11097:SF9 | Panther | EXOSOME COMPLEX COMPONENT RRP43 | JGI | N/A | IEA |
| PF01138 | PFAM | 3' exoribonuclease family, domain 1 | JGI | N/A | IEA |
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Glyma.08g246800 not represented in the dataset |
Glyma.08g246800 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.18g267600 | 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 |
|---|---|---|---|
| Glyma08g27080 | Wm82.a1.v1.1 | IGC | As supplied by JGI |
>Glyma.08g246800.1 sequence-type=CDS polypeptide=Glyma.08g246800.1.p locus=Glyma.08g246800 ID=Glyma.08g246800.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 ATGGGATTACCAAATGTTTCTGAGGACTTGTCATCAGAGATGGAGGTTGATGCCTTTAGACGCCTTTTTCCACTTCGATATTTTGAGCGTCATCTTGCTGAATCTATAAGGCCTGATGGTAGACCACTTGGAAAAGCTAGAGAAACAAGTATTTTTCTTGGTGCTGTTGCGTCTGCTAATGGGTCGGCTCTAGTGAAGATTGGATCAACTACTATATTGACTGCTATTAAAATGGAAGTTATGACTCCGTCCTTGGAGTCACCGGATGAGGGCTGTCTAGCTATTGATTTCCACATGCCTCCAATTTGTTCTCCAATAGTTAGGCCTGGCAGGCCAGCTGAAGCATCACCGGTGGTGTCAAAGCAGTTGTCTGACACCATTTCTAGTTCCAAAATGATTGATTTGAAAGAATTGTCCTTGGTCAGTGGAAAAGCTGCATGGATGGCTTACCTGGATATCTACTGTTTGGATGCCGATGGTGCTCTTTTTGATGCTGCATTACTTTCTGCCGTTGCTTCCTTATCTCATTTGCAAATTCCTGTTGTTGCCATGAATGATGATGGCAAAATAGTACTCGTGTCTGAAGAAGATGGACAAAAGCGAGAACAGGAGCCAGTCAATAAGGAGAAGAGGAAGCTTACATTAAGAAGCATTCCATTCTCATTAACTTGCATACTTCACAAGAATTACATATTGGCTGATCCTACTGCAGAAGAAGAATCCATTATGGAAACCCATGTAACAGTAGTTTTGGATACATCCGGTCAACTAATATCTCTTTACAAGCCTGGTGGGCCAGTTCTTGCCTACACTTCTGCTATCCAGGATTGTGCTGCGTTAACCCGGCAAAGAGTAAAGGAACTAAAGAGCTTCTTAGACAAAGCAAATTCTGCTATGGAGGTTGAGTAG
>Glyma.08g246800.1.p sequence-type=predicted peptide transcript=Glyma.08g246800.1 locus=Glyma.08g246800 ID=Glyma.08g246800.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 MGLPNVSEDLSSEMEVDAFRRLFPLRYFERHLAESIRPDGRPLGKARETSIFLGAVASANGSALVKIGSTTILTAIKMEVMTPSLESPDEGCLAIDFHMPPICSPIVRPGRPAEASPVVSKQLSDTISSSKMIDLKELSLVSGKAAWMAYLDIYCLDADGALFDAALLSAVASLSHLQIPVVAMNDDGKIVLVSEEDGQKREQEPVNKEKRKLTLRSIPFSLTCILHKNYILADPTAEEESIMETHVTVVLDTSGQLISLYKPGGPVLAYTSAIQDCAALTRQRVKELKSFLDKANSAMEVE*
| 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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