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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT5G08450 | AT | Annotation by Michelle Graham. TAIR10: FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Histone deacetylation protein Rxt3 (InterPro:IPR013951); Has 34444 Blast hits to 20801 proteins in 1175 species: Archae - 64; Bacteria - 2390; Metazoa - 15568; Fungi - 3729; Plants - 1886; Viruses - 208; Other Eukaryotes - 10599 (source: NCBI BLink). | chr5:2727970-2732572 REVE | SoyBase | E_val: 0 | ISS |
| GO:0006486 | GO-bp | Annotation by Michelle Graham. GO Biological Process: protein glycosylation | SoyBase | N/A | ISS |
| GO:0007059 | GO-bp | Annotation by Michelle Graham. GO Biological Process: chromosome segregation | SoyBase | N/A | ISS |
| GO:0007062 | GO-bp | Annotation by Michelle Graham. GO Biological Process: sister chromatid cohesion | SoyBase | N/A | ISS |
| GO:0007129 | GO-bp | Annotation by Michelle Graham. GO Biological Process: synapsis | SoyBase | N/A | ISS |
| GO:0007131 | GO-bp | Annotation by Michelle Graham. GO Biological Process: reciprocal meiotic recombination | SoyBase | N/A | ISS |
| GO:0008150 | GO-bp | Annotation by Michelle Graham. GO Biological Process: biological process | SoyBase | N/A | ISS |
| GO:0009887 | GO-bp | Annotation by Michelle Graham. GO Biological Process: organ morphogenesis | SoyBase | N/A | ISS |
| GO:0009888 | GO-bp | Annotation by Michelle Graham. GO Biological Process: tissue development | SoyBase | N/A | ISS |
| GO:0010332 | GO-bp | Annotation by Michelle Graham. GO Biological Process: response to gamma radiation | SoyBase | N/A | ISS |
| GO:0010413 | GO-bp | Annotation by Michelle Graham. GO Biological Process: glucuronoxylan metabolic process | SoyBase | N/A | ISS |
| GO:0010638 | GO-bp | Annotation by Michelle Graham. GO Biological Process: positive regulation of organelle organization | SoyBase | N/A | ISS |
| GO:0016926 | GO-bp | Annotation by Michelle Graham. GO Biological Process: protein desumoylation | SoyBase | N/A | ISS |
| GO:0032204 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of telomere maintenance | SoyBase | N/A | ISS |
| GO:0032504 | GO-bp | Annotation by Michelle Graham. GO Biological Process: multicellular organism reproduction | SoyBase | N/A | ISS |
| GO:0033044 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of chromosome organization | SoyBase | N/A | ISS |
| GO:0042138 | GO-bp | Annotation by Michelle Graham. GO Biological Process: meiotic DNA double-strand break formation | SoyBase | N/A | ISS |
| GO:0043247 | GO-bp | Annotation by Michelle Graham. GO Biological Process: telomere maintenance in response to DNA damage | SoyBase | N/A | ISS |
| GO:0045132 | GO-bp | Annotation by Michelle Graham. GO Biological Process: meiotic chromosome segregation | SoyBase | N/A | ISS |
| GO:0045492 | GO-bp | Annotation by Michelle Graham. GO Biological Process: xylan biosynthetic 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 |
| KOG4843 | KOG | Uncharacterized conserved protein | JGI | ISS | |
| PF08642 | PFAM | Histone deacetylation protein Rxt3 | JGI | ISS | |
| UniRef100_G7L6E8 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: RXT3-like protein n=1 Tax=Medicago truncatula RepID=G7L6E8_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_UPI0002338A1E | UniRef | Annotation by Michelle Graham. Best UniRef hit: UPI0002338A1E related cluster n=1 Tax=unknown RepID=UPI0002338A1E | SoyBase | E_val: 0 | ISS |
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Glyma09g28530 not represented in the dataset |
Glyma09g28530 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 |
|---|---|---|
| Glyma16g33300 | 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.09g157300 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma09g28530.1 sequence type=CDS gene model=Glyma09g28530 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGAGTGGTGTTCCTAAGAGATCTCATGAGGATTCTGTTCATCAGTCTTCAAAGCATCCACATCAAGATTCAGGTACATATTCCAAGTTGATGCCATCAGTTTCAAATGACCACCATATTCCTTATGATATGAGTCAGGATTCCCGGGTGGCAAAGACAGTCCGTACTGAACCTCGTGATGCAGATAGAAGATCTCATCTTCATACAGTGTATCGGATGCCATTATCTTCAAATGATTCTCATGCAGATCATCCCATTGGACCTGAGAGCAGGACAGAATCTAGGGATTTTAAGGAGAGTAGAGAACCCCGGTTTGAGAATCGTGATACGAAGACAGAGAAGAAGGAATTGCATGGTGAAGCCAGAAGGGATTCTCAGATTGCAAAGAGTGAGAAGGATGTGCGAGTTGATGGCAGAGGAGATGATAACAAGGATATTAGATATGAATGGGATGGCCATAATGATTCGAAAGGTGACATTAAGACAGACAAGGATGGCTATGGTATGGTAAGCAGCAGCAGCCACTTGAATTGGAAAGAATCAAAAGAGTATAGGGGTAAGAGATTTTCTGATGCCCCTGGTGGGAGTTTGGATTCCTGGCATACATCACGTGGAAATACACCAACCGAAGTTGGAAAGGACAGTTCAATGGCAGAAGAAAGAGACTATTTGGAAACACATGAGGCTGTTGGGGAAAACAAAATTGATTCTAAAAGTGAAGATAGATTTAAAGAAAGAAAAAGAAAGGATGTCAAGCATCGGGATTGGGGGGATAGAGAAAAGGAGAGAAGTGATCGCAGAAGCACTACGCCAGTTAACAATAATAGTGGTGACAACAAAGAATCTGCCAAGGAAGATAGAGATGTAGAAAAATGGGAGAGGGAGAGGAAAGATCTTCCAAAAGAGAAAGAAAGTTCAAAAGAGAAGGAAAAGGATCATAGCAAGAGGGAATCCTTGAACGGAATGGAGAAAGATGGTTTGAATGATGGGAAGGAACTTTGTGAAGAAAAAAATACTGAGCTAGAAAATGTGTTACCAGAACAAAAGAAACAGAAAGATGTTGACAGCTGGAAAAATGTTGATGGAGAAGTTAGAGAGAGGAGAAAAGAAAGGGATGCTGATTTAGAAGGAGATCGGCCTGATAAGCGCAGTAAAATTGACAAGCAATCAGAAGATGGAAGTGCTCACGGGGAAGGAACTGGAGAGAAGGAGAGGGAAGTCCATAATTATAATGTTCAACATCGTAAAAGGATCCACCGATCAAGGGGAAGCCCTCAGGTGGCCAATCGTGAGGCTCGTTTTAGATCTCATACTCAAGCTCCAGACAATGAAGAGTCTCAAGGTAAAGCAGAAGTCTCTTCTGTTGTTTATAAAGTTGGTGAAAGCATGCAAGAACTGATAAAGTTGTGGAAGGAATATGAATTATCTCAATCTCAAGTTGAAAAAAATAGTGAAAGCTCTAATGGTGGCCCCACTCTTGAAATCCGGATACCAGCTGAGAATGTTACAGCTACAAACCGTCAAGTTAGAGGTGGCCAGCTATGGGGGACTGATGTTTACACTTATGACTCAGATCTTGTTGCTGTTCTCATGCATACAGGTTATTGTCGCCCAACAGCTTCTCCACCTCACATGGCTGTACAAGAGTTGCGCACAACCATTCAAGTGCTACCTCCGCAAGATTCCTATATTTCTACTCTGAGAAACAATGTACGTTCCCGTGCTTGGGGTGCTGCAATTGGTTGTAGTTATAAAGTTGAGCGGTGCTGCATCGTAAAGAAAGGAGGTGGAACTATTGATCTTGAACCTTGCCTTACACATACCTCAACTGTTGAGCCTACCCTTGCACCAGTTGCTACTGAGCGGACAATTACTACTAGGGCTGCAGCTTCGAATGCATTGCGGCAGCAAAGATTTGTACGCGAAGTTACAATACAGTACAACCTCTGCAATGAACCATGGATCAAATATAGTATAAGCATTGTTGCTGACAAGGGTCTAAAAAAGCCACTCTATACATCTGCTCGTTTAAAGAAGGGAGAAGTTCTTTATCTGGAGACACACTCCTGCAGATATGAGCTCTGTTTTACTGGAGAAAAGATGGCGAAGGCTATACCAGCAACTCAGATGCATGACCTAGATACAGAGAAGTCTCAAAATCACCATCACCATCCCACAAATGGTGACAAAGCTGATTCTGATAATGTTATGGTTGATGTATTTCGATGGTCTCGATGTAAGAATCCTCTACCCCAGAAACTGATGCGCACGATTGGAATCCCTCTGCCTCTTGAACATGTGGAGGTGCTAGAGGAAAACCTGGACTGGGAAGATGTACAGTGGTCGCAAACTGGCGTTTGGATTGCAGGAAAGGAATATACCCTTGCTCGGGTGCATTTCTTGTCAATGAATTAG
>Glyma09g28530.1 sequence type=predicted peptide gene model=Glyma09g28530 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MSGVPKRSHEDSVHQSSKHPHQDSGTYSKLMPSVSNDHHIPYDMSQDSRVAKTVRTEPRDADRRSHLHTVYRMPLSSNDSHADHPIGPESRTESRDFKESREPRFENRDTKTEKKELHGEARRDSQIAKSEKDVRVDGRGDDNKDIRYEWDGHNDSKGDIKTDKDGYGMVSSSSHLNWKESKEYRGKRFSDAPGGSLDSWHTSRGNTPTEVGKDSSMAEERDYLETHEAVGENKIDSKSEDRFKERKRKDVKHRDWGDREKERSDRRSTTPVNNNSGDNKESAKEDRDVEKWERERKDLPKEKESSKEKEKDHSKRESLNGMEKDGLNDGKELCEEKNTELENVLPEQKKQKDVDSWKNVDGEVRERRKERDADLEGDRPDKRSKIDKQSEDGSAHGEGTGEKEREVHNYNVQHRKRIHRSRGSPQVANREARFRSHTQAPDNEESQGKAEVSSVVYKVGESMQELIKLWKEYELSQSQVEKNSESSNGGPTLEIRIPAENVTATNRQVRGGQLWGTDVYTYDSDLVAVLMHTGYCRPTASPPHMAVQELRTTIQVLPPQDSYISTLRNNVRSRAWGAAIGCSYKVERCCIVKKGGGTIDLEPCLTHTSTVEPTLAPVATERTITTRAAASNALRQQRFVREVTIQYNLCNEPWIKYSISIVADKGLKKPLYTSARLKKGEVLYLETHSCRYELCFTGEKMAKAIPATQMHDLDTEKSQNHHHHPTNGDKADSDNVMVDVFRWSRCKNPLPQKLMRTIGIPLPLEHVEVLEENLDWEDVQWSQTGVWIAGKEYTLARVHFLSMN*
| 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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