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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT3G28730 | AT | Annotation by Michelle Graham. TAIR10: high mobility group | chr3:10784954-10788498 FORWARD LENGTH=646 | SoyBase | E_val: 0 | ISS |
| GO:0000394 | GO-bp | Annotation by Michelle Graham. GO Biological Process: RNA splicing, via endonucleolytic cleavage and ligation | SoyBase | N/A | 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:0006366 | GO-bp | Annotation by Michelle Graham. GO Biological Process: transcription from RNA polymerase II promoter | 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:0009855 | GO-bp | Annotation by Michelle Graham. GO Biological Process: determination of bilateral symmetry | SoyBase | N/A | ISS |
| GO:0009887 | GO-bp | Annotation by Michelle Graham. GO Biological Process: organ morphogenesis | SoyBase | N/A | ISS |
| GO:0010014 | GO-bp | Annotation by Michelle Graham. GO Biological Process: meristem initiation | SoyBase | N/A | ISS |
| GO:0010050 | GO-bp | Annotation by Michelle Graham. GO Biological Process: vegetative phase change | SoyBase | N/A | ISS |
| GO:0010051 | GO-bp | Annotation by Michelle Graham. GO Biological Process: xylem and phloem pattern formation | SoyBase | N/A | ISS |
| GO:0010073 | GO-bp | Annotation by Michelle Graham. GO Biological Process: meristem maintenance | SoyBase | N/A | ISS |
| GO:0010228 | GO-bp | Annotation by Michelle Graham. GO Biological Process: vegetative to reproductive phase transition of meristem | 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:0016569 | GO-bp | Annotation by Michelle Graham. GO Biological Process: covalent chromatin modification | SoyBase | N/A | ISS |
| GO:0031047 | GO-bp | Annotation by Michelle Graham. GO Biological Process: gene silencing by RNA | 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:0048439 | GO-bp | Annotation by Michelle Graham. GO Biological Process: flower morphogenesis | SoyBase | N/A | ISS |
| GO:0048519 | GO-bp | Annotation by Michelle Graham. GO Biological Process: negative regulation of biological process | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0005719 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nuclear euchromatin | SoyBase | N/A | ISS |
| GO:0035101 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: FACT complex | 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 |
| KOG0526 | KOG | Nucleosome-binding factor SPN, POB3 subunit | JGI | ISS | |
| PTHR13711 | Panther | SWI/SNF-RELATED CHROMATIN BINDING PROTEIN | JGI | ISS | |
| PTHR13711:SF59 | Panther | SUBFAMILY NOT NAMED | JGI | ISS | |
| PF03531 | PFAM | Structure-specific recognition protein (SSRP1) | JGI | ISS | |
| UniRef100_O04235 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: FACT complex subunit SSRP1 n=1 Tax=Vicia faba RepID=SSRP1_VICFA | SoyBase | E_val: 0 | ISS |
| UniRef100_UPI000233992C | UniRef | Annotation by Michelle Graham. Best UniRef hit: UPI000233992C related cluster n=1 Tax=unknown RepID=UPI000233992C | SoyBase | E_val: 0 | ISS |
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Glyma03g03781 not represented in the dataset |
Glyma03g03781 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 |
|---|---|---|
| Glyma01g33240 | 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.03g031900 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma03g03781.1 sequence type=CDS gene model=Glyma03g03781 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGCTATCGCTGTTCGGCTCGTTGCAGCACTCAAACTCCTTCATTGCAGCTACACTCAACACCGTGTTTAGATGGAAGCCTAAGTTTTGCGGCAACTTTGGAAAATACTTCAAAAGTGCGTTCAAGTCTCACAAAACGGTGCATTGGAACACGTGTCAATGGATTAAAACGGTAAAACGAACACACCCTTGTTACTTGGACGTGGAAATTCACGTTCGCGCTCCTTTTTATCTTGGCATTGCGTTTGTGTGTGTGTGCAATATCACACAACCCAACCTTATTCGTTCTTCTGTTGTTCTGAGGCGAGCCATGACGGACGGTCATCTCTTCAACAACATCACCCTCGGTGGCCGTGGAGGCACCAATCCAGGGCAGATAAAAATATATCCTGGAGGAATTGTATGGAAGAGACAGGGTGGTGGTAAATTAATTGAAGTTGATAAATCTGACATAATGGGGGTGACATGGATGAAGGTACCAAGGAGTAACCAACTTGGTGTTCAAATCAAAGATGGGTTGTACTACAAGTTCACGGGATTTCGTGACCAGGATGTTGTAACTTTGACCAATTTTTTCCAAAACACCTGTGGAATATCAGTAGAAGAGAAGCAACTTTCTGTTAGCGGACGTAATTGGGGAGAAGTTGATCTAAATGGAAATATGCTGGCTTTCATGGTTGGTTCAAAGCAAGCTTTTGAAGTATCTTTAGCAGATGTCTCTCAAACACAGCTTCAAGGGAAGAATGATGTGATCTTGGAGTTTCATGTGGATGACACAACTGGAGCTAATGAGAAAGATTCACTGATGGAGATAAGTTTCCACATACCAAATTCCAACACCCAGTTTGTTGGTGATGAAAATCGTCCCCCTGCTCAGGTTTTCCGTGACAAAATTATGTCTATGGCTGATGTTGGTGCTGGAGGTGAAGATGCCATTGTTACATTTGAGGGTATTGCTATCCTTACGCCAAGAGGACGATACAGTGTTGAGTTACACATGTCATTCTTGCGGCTTCAAGGACAGGCTAATGATTTCAAAATCCAATATAGCAGTGTGGTTCGCCTATTTTTACTTCCTAAGTCTAATCAACCACATACCTTTGTCATTATTAGTCTTGATCCCCCTATTCGAAAGGGACAAACTTTGTACCCTCATATTGTGATGCAGTTTGAAACTGATTATGTTGTTGAAAGTGAATTGGCAATAAATGAAGATCTTTATAACACAAAGTTCAAGGACAAGTTGGAGCTGTCTTATAAGGGTCTTATTCATGAAGTGTTCACCACAATATTACGTGGTTTGTCTGGTGCCAAAGTGACCAAGCCCGGAAAATTTAGGAGTTGTCAAGATGGTTATGCAGTGAAATCATCTTTGAAAGCTGAAGATGGAATTCTGTATCCCCTTGAGAAGAGCTTCTTCTTTCTACCTAAACCTCCCACTCTTATTCTTCATGAAGAGATTGACTATGTGGAATTTGAGCGGCATGCTGCTGGTGGCTCCAATATGCATTATTTTGACCTTCTTATCAGACTAAAATCTGAACAAGAGCATCTCTTCCGTAATATTCAGAGAAATGAGTACCACAATTTGTATGAATTTATCAGTTCAAAGGGCTTGAAAATTATGAACTTAGGAGATGCCCAACCTACTGTTGGTATAAAGAAGGTTCTTGAGAATGATGATGATGATGCTGTTGATCCACATCTTGAGCGCATAAAAAATGAAGCTGGTGAAGATGAAAGTGATGAGGAGGATTCTGATTTTGTTGCTGACAAGGATGATGAAGGTTCTCCTACTGATGATTCTGGGGCAGACGATTCTGATGCCACTGATAGTGGTGATGAGAAAGAGAAGCCTGCCAAAAAGGAATCAAACAAGGGCTCTCCCTCTTAG
>Glyma03g03781.1 sequence type=predicted peptide gene model=Glyma03g03781 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MLSLFGSLQHSNSFIAATLNTVFRWKPKFCGNFGKYFKSAFKSHKTVHWNTCQWIKTVKRTHPCYLDVEIHVRAPFYLGIAFVCVCNITQPNLIRSSVVLRRAMTDGHLFNNITLGGRGGTNPGQIKIYPGGIVWKRQGGGKLIEVDKSDIMGVTWMKVPRSNQLGVQIKDGLYYKFTGFRDQDVVTLTNFFQNTCGISVEEKQLSVSGRNWGEVDLNGNMLAFMVGSKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENRPPAQVFRDKIMSMADVGAGGEDAIVTFEGIAILTPRGRYSVELHMSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVIISLDPPIRKGQTLYPHIVMQFETDYVVESELAINEDLYNTKFKDKLELSYKGLIHEVFTTILRGLSGAKVTKPGKFRSCQDGYAVKSSLKAEDGILYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKSEQEHLFRNIQRNEYHNLYEFISSKGLKIMNLGDAQPTVGIKKVLENDDDDAVDPHLERIKNEAGEDESDEEDSDFVADKDDEGSPTDDSGADDSDATDSGDEKEKPAKKESNKGSPS*
| 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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