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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 |
|---|---|---|---|---|---|
| AT1G03140.1 | AT | splicing factor Prp18 family protein | JGI | N/A | IEA |
| GO:0000350 | GO-bp | generation of catalytic spliceosome for second transesterification step | EnsemblGenomes | N/A | IEA |
| GO:0008380 | GO-bp | RNA splicing | EnsemblGenomes | N/A | IEA |
| GO:0008380 | GO-bp | RNA splicing | JGI | N/A | IEA |
| GO:0071048 | GO-bp | nuclear retention of unspliced pre-mRNA at the site of transcription | EnsemblGenomes | N/A | IEA |
| GO:0005681 | GO-cc | spliceosomal complex | EnsemblGenomes | N/A | IEA |
| GO:0005681 | GO-cc | spliceosomal complex | JGI | N/A | IEA |
| GO:0005682 | GO-cc | U5 snRNP | EnsemblGenomes | N/A | IEA |
| GO:0046540 | GO-cc | U4/U6 x U5 tri-snRNP complex | EnsemblGenomes | N/A | IEA |
| GO:0071021 | GO-cc | U2-type post-spliceosomal complex | EnsemblGenomes | N/A | IEA |
| GO:0000386 | GO-mf | second spliceosomal transesterification activity | EnsemblGenomes | N/A | IEA |
| KOG2808 | KOG | U5 snRNP-associated RNA splicing factor | JGI | N/A | IEA |
| PTHR13007 | Panther | PRE-MRNA SPLICING FACTOR-RELATED | JGI | N/A | IEA |
| PTHR13007:SF6 | Panther | JGI | N/A | IEA | |
| PF02840 | PFAM | Prp18 domain | JGI | N/A | IEA |
| PF08799 | PFAM | pre-mRNA processing factor 4 (PRP4) like | JGI | N/A | IEA |
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Glyma.19g157200 not represented in the dataset |
Glyma.19g157200 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.03g155000 | 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 |
|---|---|---|---|
| Glyma19g33970 | Wm82.a1.v1.1 | IGC | As supplied by JGI |
>Glyma.19g157200.1 sequence-type=CDS polypeptide=Glyma.19g157200.1.p locus=Glyma.19g157200 ID=Glyma.19g157200.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 ATGGACCTTCTGAAGCAAGAGCTTCTCAAGAAGCGCCAATCCCTGGCGCAAGACACCGGCGGCAAGAAATTCTTCAAGCGCTCCGAGATCCAGCAGAAGGAAATCCAAAAACTCCGCCAGCAAGAGAAGCGCGAATTGGAAGCCAAGTCACTAAAGCGCCTCGCAACATCCTCCGACACCGCCGCCACCGCCCCGTCCTCTTCATCCACCGCCTCCTCCTCGGCCTCGTCCACTATCGCCTCCGCCTCCGCCTCCCTCACCGACGAGCAAAACATCGACAACCTCGTGCTCCCGAAACCCGAGGTCATCCGCCGCCTCCGCTTCCTGAAGCAGCCGGTCACGCTCTTCGGAGAAGACGATGACGCCAGGCTGGACCGCCTCAAGTACGTCCTCAAGGCCGGCGTCTTCGAGGTCGACAGCGACATGACGGAGGGGCAGACCAACGATTTCCTGCGAGATATTGCGGAGCTGAGGAAGCGCCAGAAGACCGGGATCCTCGGCGAGAGGAAGCGCCAGAAGGCCGACGACGGTGCCGCTCAGGACCGTGAGGGTGGAGCCGGAGATGATGACTTGAGCGACTGCGGCAGCTCCGAAGGTGCCGAAGCGGACAAGGACTTGAAGCGGATGAAGGCGAATTTCGAGGAGCTTTGCGATGAGGATAAGATTCTGGTGTTTTTCAAGAAGCTGTTGAATGAGTGGAAGCAGGAGTTGCGCGAGATGCCTGAGGCGGAGAAGCGCACGGCCAAGGGGAAGTCCATGGTTGCCACGTTTAAGCAGTGTGCGCGTTACTTGAATCCGCTGTTTAAGTTTTGCAGGAAGAAGGTTCTTCCGGATGACATTCGCCAGGCGCTATTGCTGATGGTTGAATGCTGTATGAAGAGAGATTATCTAGCTGCAATGGACCATTATATCAAGCTGGCCATTGGGAATGCACCCTGGCCTATTGGTGTCACTATGGTTGGTATTCACGAAAGATCTGCCCGTGAAAAGATCTACACCAACAGTGTTGCTCACATCATGAATGATGAGACCACTCGCAAGTACTTGCAATCTGTGAAGAGATTAATGACATTTTGCCAACGCCGTTATCCGACATTGCCTTCTAAAGCTGTTGAGTTCAATAGTTTGGCAAATGGCAGTGATTTGCATTCACTTCTAGCAGAAGAGAGATTTAGTGGGGGCAATCAGGCTTCTGAAGAGAGGCTTAGGATAATGCCTGCTCCAAGAGACATCTAG
>Glyma.19g157200.1.p sequence-type=predicted peptide transcript=Glyma.19g157200.1 locus=Glyma.19g157200 ID=Glyma.19g157200.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 MDLLKQELLKKRQSLAQDTGGKKFFKRSEIQQKEIQKLRQQEKRELEAKSLKRLATSSDTAATAPSSSSTASSSASSTIASASASLTDEQNIDNLVLPKPEVIRRLRFLKQPVTLFGEDDDARLDRLKYVLKAGVFEVDSDMTEGQTNDFLRDIAELRKRQKTGILGERKRQKADDGAAQDREGGAGDDDLSDCGSSEGAEADKDLKRMKANFEELCDEDKILVFFKKLLNEWKQELREMPEAEKRTAKGKSMVATFKQCARYLNPLFKFCRKKVLPDDIRQALLLMVECCMKRDYLAAMDHYIKLAIGNAPWPIGVTMVGIHERSAREKIYTNSVAHIMNDETTRKYLQSVKRLMTFCQRRYPTLPSKAVEFNSLANGSDLHSLLAEERFSGGNQASEERLRIMPAPRDI*
| 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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