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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT4G15950 | AT | Annotation by Michelle Graham. TAIR10: RNA polymerase II, Rpb4, core protein | chr4:9040743-9041994 FORWARD LENGTH=205 | SoyBase | E_val: 2.00E-43 | ISS |
| GO:0006351 | GO-bp | Annotation by Michelle Graham. GO Biological Process: transcription, DNA-dependent | SoyBase | N/A | ISS |
| GO:0010426 | GO-bp | Annotation by Michelle Graham. GO Biological Process: DNA methylation on cytosine within a CHH sequence | SoyBase | N/A | ISS |
| GO:0016246 | GO-bp | Annotation by Michelle Graham. GO Biological Process: RNA interference | SoyBase | N/A | ISS |
| GO:0030422 | GO-bp | Annotation by Michelle Graham. GO Biological Process: production of siRNA involved in RNA interference | SoyBase | N/A | ISS |
| GO:0044237 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cellular metabolic process | SoyBase | N/A | ISS |
| GO:0051325 | GO-bp | Annotation by Michelle Graham. GO Biological Process: interphase | SoyBase | N/A | ISS |
| GO:0000418 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: DNA-directed RNA polymerase IV complex | SoyBase | N/A | ISS |
| GO:0000419 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: DNA-directed RNA polymerase V complex | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0000166 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: nucleotide binding | SoyBase | N/A | ISS |
| GO:0003824 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: catalytic activity | SoyBase | N/A | ISS |
| GO:0003899 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: DNA-directed RNA polymerase activity | SoyBase | N/A | ISS |
| KOG2351 | KOG | RNA polymerase II, fourth largest subunit | JGI | ISS | |
| PF03874 | PFAM | RNA polymerase Rpb4 | JGI | ISS | |
| UniRef100_A2Q5H4 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: DNA-directed RNA polymerase II subunit rpb4 n=1 Tax=Medicago truncatula RepID=A2Q5H4_MEDTR | SoyBase | E_val: 9.00E-64 | ISS |
| UniRef100_I1L062 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1L062_SOYBN | SoyBase | E_val: 4.00E-150 | ISS |
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Glyma09g01880 not represented in the dataset |
Glyma09g01880 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 |
|---|---|---|
| Glyma15g12830 | 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.09g016100 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma09g01880.2 sequence type=transcript gene model=Glyma09g01880 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high AAAGACCAACATACCCTTATACGTGTCTTGTTTGAGGCTCTTCGGTCCTCACTCTCACTCAAATTCTCATTTTCTTCTTCTTCGTTTTTCCTCTACGGCGTTTCTCTTCTCCAGCTTCTGTGGGTGAAGCGAGTTTTGGCGATGGAGAAAGGAGGAAAGGGCGCTTCGCTGTTCAGCAAAGGGGGACTAGGATCCCTAAAAGGGAAAGATGACATTGCAACAAAATCAGCAAAGGGAAGGAGGGTTCAGTTTTCTACTGATGGTCCATTATTTGAATCTGGAGTAAGTAGTAACTCAGCCACTTCACTAAAATCTGGTGGAAAAGGAGGAATGGGAGACAATGTTGCAAAAGGTGGAAAGAATTCTCAGTCAAAAGACTCCCATCCATCAGATTACAGAGTTGATCAAAAGCTTCCAGAAAATATCAAATGCCTGATGGACTGTGAGGCTGTGGATATTTTACAAGGAATTCAAGAGCGGATGGTCATGTTATCTAGAGATTCAACTGTCAAAATGCCTATATCATTTGACAAGGGACTGCAATATGCCAAAAGCAATAGCAAGTATTTAGATCTGCAGTCTATTAGACACATTCTTGATCGTCTTGCAAAATGTGGTGTCACTGATAGTGAGATATGTGTGATTGGTAATGTGTGCCCAGAAACTATTGATGAAGTTTTTGCTCTTCTCCCATCCTTGAAGGATAGGAGAAACATTGACAGTCAAGTTCTTAAGGATTCACTGAGTGAGCTTGCTAAGTTTAGACAGACAATGTAAAGCCTCATACTGAAAGAGCTTATTGAGTGCAGGTTTGGCGTGTAGGAGACATGTAGCACATGTGAAAACAGTTTTCAAAGTTACATAGACACTAATGTAAAACTTTAATCCATGTGTTATATTGGGTTTTAGATTCTATTCATATCCTACTTGGCTGTACAGATTGTGGATGACAATTTGATGAATTTTGCATGCACAAGACCGTGGTTGGATCTTGTATATGGTAATGGTACAGGAAAACTTGGTGAATGCAAGAGAAGATACATGTGATTATAAAAATTTCATGATTAAGGAATACACACTTTACAAGCGAGCTATGCGCCCCAAACTA
>Glyma09g01880.1 sequence type=CDS gene model=Glyma09g01880 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGAGAAAGGAGGAAAGGGCGCTTCGCTGTTCAGCAAAGGGGGACTAGGATCCCTAAAAGGGAAAGATGACATTGCAACAAAATCAGCAAAGGGAAGGAGGGTTCAGTTTTCTACTGATGGTCCATTATTTGAATCTGGAGTAAGTAGTAACTCAGCCACTTCACTAAAATCTGGTGGAAAAGGAGGAATGGGAGACAATGTTGCAAAAGGTGGAAAGAATTCTCAGTCAAAAGACTCCCATCCATCAGATTACAGAGTTGATCAAAAGCTTCCAGAAAATATCAAATGCCTGATGGACTGTGAGGCTGTGGATATTTTACAAGGAATTCAAGAGCGGATGGTCATGTTATCTAGAGATTCAACTGTCAAAATGCCTATATCATTTGACAAGGGACTGCAATATGCCAAAAGCAATAGCAAGTATTTAGATCTGCAGTCTATTAGACACATTCTTGATCGTCTTGCAAAATGTGGTGTCACTGATAGTGAGATATGTGTGATTGGTAATGTGTGCCCAGAAACTATTGATGAAGTTTTTGCTCTTCTCCCATCCTTGAAGGATAGGAGAAACATTGACAGTCAAGTTCTTAAGGATTCACTGAGTGAGCTTGCTAAGTTTAGACAGACAATGTAA >Glyma09g01880.2 sequence type=CDS gene model=Glyma09g01880 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high AAAGACCAACATACCCTTATACGTGTCTTGTTTGAGGCTCTTCGGTCCTCACTCTCACTCAAATTCTCATTTTCTTCTTCTTCGTTTTTCCTCTACGGCGTTTCTCTTCTCCAGCTTCTGTGGGTGAAGCGAGTTTTGGCGATGGAGAAAGGAGGAAAGGGCGCTTCGCTGTTCAGCAAAGGGGGACTAGGATCCCTAAAAGGGAAAGATGACATTGCAACAAAATCAGCAAAGGGAAGGAGGGTTCAGTTTTCTACTGATGGTCCATTATTTGAATCTGGAGTAAGTAGTAACTCAGCCACTTCACTAAAATCTGGTGGAAAAGGAGGAATGGGAGACAATGTTGCAAAAGGTGGAAAGAATTCTCAGTCAAAAGACTCCCATCCATCAGATTACAGAGTTGATCAAAAGCTTCCAGAAAATATCAAATGCCTGATGGACTGTGAGGCTGTGGATATTTTACAAGGAATTCAAGAGCGGATGGTCATGTTATCTAGAGATTCAACTGTCAAAATGCCTATATCATTTGACAAGGGACTGCAATATGCCAAAAGCAATAGCAAGTATTTAGATCTGCAGTCTATTAGACACATTCTTGATCGTCTTGCAAAATGTGGTGTCACTGATAGTGAGATATGTGTGATTGGTAATGTGTGCCCAGAAACTATTGATGAAGTTTTTGCTCTTCTCCCATCCTTGAAGGATAGGAGAAACATTGACAGTCAAGTTCTTAAGGATTCACTGAGTGAGCTTGCTAAGTTTAGACAGACAATGTAA
>Glyma09g01880.1 sequence type=predicted peptide gene model=Glyma09g01880 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MEKGGKGASLFSKGGLGSLKGKDDIATKSAKGRRVQFSTDGPLFESGVSSNSATSLKSGGKGGMGDNVAKGGKNSQSKDSHPSDYRVDQKLPENIKCLMDCEAVDILQGIQERMVMLSRDSTVKMPISFDKGLQYAKSNSKYLDLQSIRHILDRLAKCGVTDSEICVIGNVCPETIDEVFALLPSLKDRRNIDSQVLKDSLSELAKFRQTM* >Glyma09g01880.2 sequence type=predicted peptide gene model=Glyma09g01880 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high KDQHTLIRVLFEALRSSLSLKFSFSSSSFFLYGVSLLQLLWVKRVLAMEKGGKGASLFSKGGLGSLKGKDDIATKSAKGRRVQFSTDGPLFESGVSSNSATSLKSGGKGGMGDNVAKGGKNSQSKDSHPSDYRVDQKLPENIKCLMDCEAVDILQGIQERMVMLSRDSTVKMPISFDKGLQYAKSNSKYLDLQSIRHILDRLAKCGVTDSEICVIGNVCPETIDEVFALLPSLKDRRNIDSQVLKDSLSELAKFRQTM*
| 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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