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
|
A newer version of this gene model can be found here:
| Database ID | Annotation Type | Annotation Description | Annotation Source | Match Score | Evidence Code |
|---|---|---|---|---|---|
| AT5G23880 | AT | Annotation by Michelle Graham. TAIR10: cleavage and polyadenylation specificity factor 100 | chr5:8052550-8058147 FORWARD LENGTH=739 | SoyBase | E_val: 0 | ISS |
| GO:0000085 | GO-bp | Annotation by Michelle Graham. GO Biological Process: G2 phase of mitotic cell cycle | 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:0006378 | GO-bp | Annotation by Michelle Graham. GO Biological Process: mRNA polyadenylation | SoyBase | N/A | ISS |
| GO:0006379 | GO-bp | Annotation by Michelle Graham. GO Biological Process: mRNA cleavage | SoyBase | N/A | ISS |
| GO:0006396 | GO-bp | Annotation by Michelle Graham. GO Biological Process: RNA processing | SoyBase | N/A | ISS |
| GO:0006397 | GO-bp | Annotation by Michelle Graham. GO Biological Process: mRNA processing | SoyBase | N/A | ISS |
| GO:0007267 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cell-cell signaling | SoyBase | N/A | ISS |
| GO:0009220 | GO-bp | Annotation by Michelle Graham. GO Biological Process: pyrimidine ribonucleotide biosynthetic process | SoyBase | N/A | ISS |
| GO:0009616 | GO-bp | Annotation by Michelle Graham. GO Biological Process: virus induced gene silencing | SoyBase | N/A | ISS |
| GO:0009640 | GO-bp | Annotation by Michelle Graham. GO Biological Process: photomorphogenesis | SoyBase | N/A | ISS |
| GO:0009793 | GO-bp | Annotation by Michelle Graham. GO Biological Process: embryo development ending in seed dormancy | 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:0016569 | GO-bp | Annotation by Michelle Graham. GO Biological Process: covalent chromatin modification | SoyBase | N/A | ISS |
| GO:0022402 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cell cycle process | SoyBase | N/A | ISS |
| GO:0031047 | GO-bp | Annotation by Michelle Graham. GO Biological Process: gene silencing by RNA | SoyBase | N/A | ISS |
| GO:0035194 | GO-bp | Annotation by Michelle Graham. GO Biological Process: posttranscriptional 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:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0005847 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: mRNA cleavage and polyadenylation specificity factor complex | SoyBase | N/A | ISS |
| GO:0009506 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: plasmodesma | SoyBase | N/A | ISS |
| GO:0003677 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: DNA binding | SoyBase | N/A | ISS |
| GO:0005515 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: protein binding | SoyBase | N/A | ISS |
| GO:0016787 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: hydrolase activity | SoyBase | N/A | ISS |
| KOG1135 | KOG | mRNA cleavage and polyadenylation factor II complex, subunit CFT2 (CPSF subunit) | JGI | ISS | |
| PTHR11203 | Panther | CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR | JGI | ISS | |
| PTHR11203:SF5 | Panther | gb def: f19f10.12.p [caenorhabditis elegans] | JGI | ISS | |
| PF00753 | PFAM | Metallo-beta-lactamase superfamily | JGI | ISS | |
| PF07521 | PFAM | RNA-metabolising metallo-beta-lactamase | JGI | ISS | |
| PF10996 | PFAM | Beta-Casp domain | JGI | ISS | |
| UniRef100_B9RVY3 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Cleavage and polyadenylation specificity factor, putative n=1 Tax=Ricinus communis RepID=B9RVY3_RICCO | SoyBase | E_val: 0 | ISS |
| UniRef100_UPI0002338605 | UniRef | Annotation by Michelle Graham. Best UniRef hit: UPI0002338605 related cluster n=1 Tax=unknown RepID=UPI0002338605 | SoyBase | E_val: 0 | ISS |
|
Glyma09g25215 not represented in the dataset |
Glyma09g25215 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 |
|---|---|---|
| Glyma16g30171 | 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.09g136900 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma09g25215.1 sequence type=CDS gene model=Glyma09g25215 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGGAACATCAGTGCAAGTAACGCCACTGTGTGGAGTGTACAATGAGAACCCTCTCTCGTATTTGGTCTCCATTGATGGCTTCAACTTCCTCGTCGACTGTGGCTGGAACGACCACTTCGACCCTTCCCACCTTCAACCCCTCGCCAGGGTAGCATCAACCATAGATGCTGTTTTGCTTTCACATGCGGATACACTTCACCTTGGTGCCCTTCCATATGCCATGAAGCGGCTTGGACTTTCTGCCCCGGTTTATTCAACGGAGCCTGTCTACAGATTGGGCCTTCTCACTATGTATGACCAGTACCTCTCAAGAAAGCAAGTGTCGGAGTTCGATCTGTTCACGCTCGATGATATTGATTCTGCTTTCCAGAGTGTAACGAGGCTAACATATTCTCAGAATCATCATTTCTCAGGCAAGGGAGAAGGGATAGTGATTGCACCTCATGTTGCTGGACATCTTCTGGGAGGTACTATTTGGAAAATTACAAAGGATGGTGAGGATGTCATATATGCTGTTGATTTTAATCATAGGAAAGAAAGGCATTTGAATGGAACTGTTCTAGGTTCTTTTGTGCGTCCAGCTGTTCTAATAACTGATGCTTACAATGCTTTGAACAATCAGCCTTACAGACGTCAAAATGACAAAGAATTTGGAGATATCTTAAAGAAGACTCTAAGGGCAGGTGGCAATGTATTACTACCTGTTGACACAGTTGGACGAGTGTTGGAACTTATTCTGATGTTGGAATTGTATTGGGCAGATGAAAACTTGAACTACCCTATATATTTTCTTACATATGTTGCATCCAGCACAATTGATTATGTGAAGAGTTTCCTTGAGTGGATGAGTGATACCATAGCAAAGTCTTTTGAAAAAACTCGTGAAAATATATTTCTTTTGAAGTATGTCACCCTTCTGATTAACAAGACTGAGCTTGACAATGCTCCAGATGGCCCAAAGGTTGTTCTAGCATCCATGGCAAGTTTGGAAGCAGGCTTTTCTCATGATATATTTGTTGAGTGGGCCAACGATGTAAAAAATCTTGTCCTTTTTACCGAAAGAGGCCAGTTTGCCACACTAGCTCGTATGCTTCAAGCTGATCCACCTCCAAAAGCTGTCAAAGTCGTTGTGTCCAAGCGTGTGCCTTTGGTTGGGGAAGAGCTAATCGCCTATGAAGAAGAACAAAATCGAATTAAAAAAGAGGCTTTAAAAGCCAGTCTTATGAAAGAGGAAGAATTGAAAACATCTCATGGGGCTGATAATGATATTAGTGATCCAATGGTCATTGATTCTGGCAATAATCATGTACCACCTGAAGTGACTGGTCCACGAGGCGGAGGTTACCGGGACATATTTATTGATGGATTTGTTCCCCCTTCGACGAGTGTTGCTCCAATATTTCCCTGTTATGAGAATACCTCAGAGTGGGATGATTTTGGTGAGGTCATAAATCCAGATGATTATGTAATTAAGGATGAAGACATGGACCAGACAGCAATGCATGGTGGAAGTGATATAAATGGAAAACTAGATGAAGGTGCTGCAAGTTTGATACTTGATACAAAGCCATCAAAAGTCGTATCTGATGAAAGGACTGTGCAAGTCAGGTGTTCATTGGTTTACATGGATTTTGAAGGACGTTCAGATGGAAGATCCATTAAAAATATTCTCTCTCATGTGGCTCCCTTGAAGCTGGTTTTGGTGCATGGATCAGCTGAAGCTACAGAGCATCTGAAACAGCACTGCCTGAAGCATGTCTGTCCACATGTTTATGCTCCCCAAATTGAAGAGACAATTGATGTTACCTCTGATTTATGTGCTTATAAGGTTCAACTGTCCGAGAAGCTCATGAGTAATGTACTCTTCAAAAAGCTGGGAGATTATGAAATAGCTTGGGTTGATGCTGTAGTAGGGAAGACAGAAAATGATCCGCTTTCGCTGCTCCCTGTTTCTGGAGCAGCTCCTCCGCATAAATCTGTTCTTGTTGGTGATTTGAAATTGGCAGATATCAAACAGTTTCTCTCCAGCAAGGGTGTTCAGGTGGAATTTGCTGGTGGGGCTTTGCGTTGTGGTGAATATGTAACTCTTCGGAAAGTTGGGGATGCAAGTCAGAAGGGTGGTGGTTCTGGTGCTCAGCAAATAGTTATTGAGGGTCCTCTGTGTGAAGATTACTATAAAATTCGTGATTATCTCTATTCACAGTTTTATTTGCTTTAG
>Glyma09g25215.1 sequence type=predicted peptide gene model=Glyma09g25215 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MGTSVQVTPLCGVYNENPLSYLVSIDGFNFLVDCGWNDHFDPSHLQPLARVASTIDAVLLSHADTLHLGALPYAMKRLGLSAPVYSTEPVYRLGLLTMYDQYLSRKQVSEFDLFTLDDIDSAFQSVTRLTYSQNHHFSGKGEGIVIAPHVAGHLLGGTIWKITKDGEDVIYAVDFNHRKERHLNGTVLGSFVRPAVLITDAYNALNNQPYRRQNDKEFGDILKKTLRAGGNVLLPVDTVGRVLELILMLELYWADENLNYPIYFLTYVASSTIDYVKSFLEWMSDTIAKSFEKTRENIFLLKYVTLLINKTELDNAPDGPKVVLASMASLEAGFSHDIFVEWANDVKNLVLFTERGQFATLARMLQADPPPKAVKVVVSKRVPLVGEELIAYEEEQNRIKKEALKASLMKEEELKTSHGADNDISDPMVIDSGNNHVPPEVTGPRGGGYRDIFIDGFVPPSTSVAPIFPCYENTSEWDDFGEVINPDDYVIKDEDMDQTAMHGGSDINGKLDEGAASLILDTKPSKVVSDERTVQVRCSLVYMDFEGRSDGRSIKNILSHVAPLKLVLVHGSAEATEHLKQHCLKHVCPHVYAPQIEETIDVTSDLCAYKVQLSEKLMSNVLFKKLGDYEIAWVDAVVGKTENDPLSLLPVSGAAPPHKSVLVGDLKLADIKQFLSSKGVQVEFAGGALRCGEYVTLRKVGDASQKGGGSGAQQIVIEGPLCEDYYKIRDYLYSQFYLL*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
|
|
|
