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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT1G59750 | AT | Annotation by Michelle Graham. TAIR10: auxin response factor 1 | chr1:21980414-21984193 FORWARD LENGTH=660 | SoyBase | E_val: 0 | ISS |
| GO:0006306 | GO-bp | Annotation by Michelle Graham. GO Biological Process: DNA methylation | SoyBase | N/A | ISS |
| GO:0006342 | GO-bp | Annotation by Michelle Graham. GO Biological Process: chromatin silencing | SoyBase | N/A | ISS |
| GO:0006346 | GO-bp | Annotation by Michelle Graham. GO Biological Process: methylation-dependent chromatin silencing | SoyBase | N/A | ISS |
| GO:0006355 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent | SoyBase | N/A | ISS |
| GO:0007267 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cell-cell signaling | SoyBase | N/A | ISS |
| GO:0009616 | GO-bp | Annotation by Michelle Graham. GO Biological Process: virus induced gene silencing | SoyBase | N/A | ISS |
| GO:0009725 | GO-bp | Annotation by Michelle Graham. GO Biological Process: response to hormone stimulus | SoyBase | N/A | ISS |
| GO:0009733 | GO-bp | Annotation by Michelle Graham. GO Biological Process: response to auxin stimulus | SoyBase | N/A | ISS |
| GO:0010150 | GO-bp | Annotation by Michelle Graham. GO Biological Process: leaf senescence | SoyBase | N/A | ISS |
| GO:0010267 | GO-bp | Annotation by Michelle Graham. GO Biological Process: production of ta-siRNAs involved in RNA interference | SoyBase | N/A | ISS |
| GO:0016246 | GO-bp | Annotation by Michelle Graham. GO Biological Process: RNA interference | SoyBase | N/A | ISS |
| GO:0035196 | GO-bp | Annotation by Michelle Graham. GO Biological Process: production of miRNAs involved in gene silencing by miRNA | SoyBase | N/A | ISS |
| GO:0045892 | GO-bp | Annotation by Michelle Graham. GO Biological Process: negative regulation of transcription, DNA-dependent | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0003677 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: DNA binding | SoyBase | N/A | ISS |
| GO:0003700 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding transcription factor activity | SoyBase | N/A | ISS |
| GO:0005515 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: protein binding | SoyBase | N/A | ISS |
| GO:0046983 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: protein dimerization activity | SoyBase | N/A | ISS |
| PF02309 | PFAM | AUX/IAA family | JGI | ISS | |
| PF02362 | PFAM | B3 DNA binding domain | JGI | ISS | |
| PF06507 | PFAM | Auxin response factor | JGI | ISS | |
| UniRef100_G7IL56 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Auxin response factor n=1 Tax=Medicago truncatula RepID=G7IL56_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_UPI000233D191 | UniRef | Annotation by Michelle Graham. Best UniRef hit: UPI000233D191 related cluster n=1 Tax=unknown RepID=UPI000233D191 | SoyBase | E_val: 0 | ISS |
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Glyma12g28550 not represented in the dataset |
Glyma12g28550 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 |
|---|---|---|
| Glyma16g00220 | 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.12g164100 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma12g28550.1 sequence type=CDS gene model=Glyma12g28550 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGCTTCCGCTGCGCCAGGTGCAACCAATGATGCTTTATACAAGGAATTGTGGCATGCCTGTGCTGGACCCCTTGTCACTCTTCCGCGTGAAGGGGAGAGAGTTTATTACTTCCCTCAAGGTCATATGGAACAGCTTGAGGCATCCATGAATCAGGGATTGGAGCAGCAAATGCCTTCCTTTAATCTGCCTTCTAAAATTTTATGTAAAGTGGTCAATGTTCATCTTCGAGCTGAACCTGAAACAGATGAAGTATATGCACAAATAACTTTGCTTCCTGAAGCAGATCAAAGTGAGGTGACAAGCCCTGATGATCCCCTGCCTGAATCTCCAAGGTGTACAGTCCATTCATTTTGCAAGACACTCACTGCTTCTGACACTAGCACTCATGGAGGTTTCTCTGTTCTTCGAAGACATGCAGATGATTGTTTGCCACCACTGGATATGACTCAGCAGCCCCCATGGCAAGAATTAGTTGCAACTGATCTGCATGGGAATGAATGGCATTTTAGACATATTTTTCGAGGGCAACCCAGGCGCCACTTACTGACCACTGGGTGGAGTGTCTTTGTCAGTTCCAAAAAATTAGTGGCTGGTGATGCATTTATATTCTTAAGGGGTGAAAATGGAGAGCTGCGAGTTGGAGTTAGGAGGCTCATGAGACAGCAAAGCAACATGCCATCTTCTGTTATATCCAGTCACAGTATGCATCTGGGTGTTCTGGCTACTGCATCTCACGCCATTGCCACAGGAACATTGTTTTCTGTATTTTACAAGCCCAGAACTAGCCGGTCTGAGTTTATTGTGAGTGTCAACAAATACCTTGAAGCTCGAAGTCATAAACTTTCTGTTGGGATGAGATTCAAAATGAGATTTGAGGGTGATGAAGTTCCTGAAAGAAGGTTCAGTGGAACGATTGTGGGTGTTGGAGATAACAAATCGTCAGTCTGGGCTGATTCTGAGTGGCGATCATTAAAGGTTCAATGGGATGAACCATCGTCTATTTTGCGTCCTGATAGAGTTTCTCCATGGGAATTGGAGCCACTTGTGTCTACCCCTCCTACAAACCCCCAGCCATCCCAAAGAAACAAGAGATCGCGGCCTCCCATTCTACCTTCAACAATGCCTGATTCTTCTCTGCAAGGTGTATGGAAATCACCAGTTGAATCTGCACCATTCTCTTATTGTGACCATCAACATGGGCGAGATGTCTATCCATCAACCAATTTCAATTCCACTGCAACTGGTTTTCTTGGTTTTGGTGGGAACTGCTATGCTTCCAACAAGTCAATATATTGGTCCAGTAGGATGGAAAACTCCACAGAATCTTTTTCTCCTGTAGCACTTAAAGAATTTGGAGAGAAGAGACAAGGGACTGCAAATGGCTGTAGACTCTTTAGGATTCAGTTACATGACAATTCTAATTCTAATGAAGAAAGTCTACCAATGGTCACTTTGTCAGGAAGGATGGGTGATGATGGCCCCCTTCCATCTTTGGATGCTGAGTCTGACCAGCATTCTGAACCATCAAATGTTAATCGATCTGATATCCCTTCGGTAAGCTGTGATGCTGAAAAATCATGCCTGCGGTCTCCCCAGGAGTCACAGAGCAGGCAAATAAGAAGTTGCACAAAGGTCCACATGCAAGGTATGGCTGTTGGAAGGGCTGTGGATTTAACACGGTTTGATGGATATGAGGATCTGCTAAGGAAATTGGAAGAGATGTTTGACATCACTGGTGAGCTCTGCGGATCGACAAAAAAATGGCAGGTTGTGTACACTGATAATGAAGATGATATGATGATGGTTGGGGATGATCCATGGCTTGAATTTTGTAGCATTGTGAGGAAAATTTTCATCTACACTGCAGAGGAGGTGAGGAAGCTTTCACCCAAAATAGGACTTCCAATCAGTGAAGAAGTTAAACCCAGCAAAATGGACTCTGAAGCAGTAGCCAATCCTGAGGATCAGTCATCTATTGTGGGGCCTGGTTGCTAA
>Glyma12g28550.1 sequence type=predicted peptide gene model=Glyma12g28550 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MASAAPGATNDALYKELWHACAGPLVTLPREGERVYYFPQGHMEQLEASMNQGLEQQMPSFNLPSKILCKVVNVHLRAEPETDEVYAQITLLPEADQSEVTSPDDPLPESPRCTVHSFCKTLTASDTSTHGGFSVLRRHADDCLPPLDMTQQPPWQELVATDLHGNEWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIFLRGENGELRVGVRRLMRQQSNMPSSVISSHSMHLGVLATASHAIATGTLFSVFYKPRTSRSEFIVSVNKYLEARSHKLSVGMRFKMRFEGDEVPERRFSGTIVGVGDNKSSVWADSEWRSLKVQWDEPSSILRPDRVSPWELEPLVSTPPTNPQPSQRNKRSRPPILPSTMPDSSLQGVWKSPVESAPFSYCDHQHGRDVYPSTNFNSTATGFLGFGGNCYASNKSIYWSSRMENSTESFSPVALKEFGEKRQGTANGCRLFRIQLHDNSNSNEESLPMVTLSGRMGDDGPLPSLDAESDQHSEPSNVNRSDIPSVSCDAEKSCLRSPQESQSRQIRSCTKVHMQGMAVGRAVDLTRFDGYEDLLRKLEEMFDITGELCGSTKKWQVVYTDNEDDMMMVGDDPWLEFCSIVRKIFIYTAEEVRKLSPKIGLPISEEVKPSKMDSEAVANPEDQSSIVGPGC*
| 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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