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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT1G61010 | AT | Annotation by Michelle Graham. TAIR10: cleavage and polyadenylation specificity factor 73-I | chr1:22474954-22477660 REVERSE LENGTH=693 | SoyBase | E_val: 0 | ISS |
| GO:0006346 | GO-bp | Annotation by Michelle Graham. GO Biological Process: methylation-dependent chromatin silencing | SoyBase | N/A | ISS |
| GO:0006378 | GO-bp | Annotation by Michelle Graham. GO Biological Process: mRNA polyadenylation | 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:0009855 | GO-bp | Annotation by Michelle Graham. GO Biological Process: determination of bilateral symmetry | SoyBase | N/A | ISS |
| GO:0010014 | GO-bp | Annotation by Michelle Graham. GO Biological Process: meristem initiation | SoyBase | N/A | ISS |
| GO:0010073 | GO-bp | Annotation by Michelle Graham. GO Biological Process: meristem maintenance | SoyBase | N/A | ISS |
| GO:0016246 | GO-bp | Annotation by Michelle Graham. GO Biological Process: RNA interference | SoyBase | N/A | ISS |
| GO:0022402 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cell cycle process | SoyBase | N/A | ISS |
| GO:0031507 | GO-bp | Annotation by Michelle Graham. GO Biological Process: heterochromatin assembly | SoyBase | N/A | ISS |
| GO:0045787 | GO-bp | Annotation by Michelle Graham. GO Biological Process: positive regulation of cell cycle | 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: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 |
| KOG1137 | KOG | mRNA cleavage and polyadenylation factor II complex, BRR5 (CPSF subunit) | JGI | ISS | |
| PTHR11203 | Panther | CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR | JGI | ISS | |
| PTHR11203:SF11 | Panther | YSH1 DOMAIN CONTAINING PROTEIN | 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 | |
| PF11718 | PFAM | Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term | JGI | ISS | |
| UniRef100_G7IPE5 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Cleavage and polyadenylation specificity factor subunit 3-I n=1 Tax=Medicago truncatula RepID=G7IPE5_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_I1KUP5 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1KUP5_SOYBN | SoyBase | E_val: 0 | ISS |
|
Glyma08g20140 not represented in the dataset |
Glyma08g20140 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 |
|---|---|---|
| Glyma12g29031 | 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.08g188800 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma08g20140.1 sequence type=CDS gene model=Glyma08g20140 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGATGGATTGTGGAGTGAAGAGACGTGAGAGTGTGAGAGAGGAAGATGATGAAGTGATGATAGTAACACCATTGGGGGCTGGAAACGAAGTGGGTCGTTCATGCGTGTACATGTCCTATAAGGGTAAATCCATATTGTTCGATTGTGGAATACACCTAGGTTTTTCAGGCATGTCCGCCTTGCCCTATTTCGACGAGATTGACCCTTCCACCCTCGATGTTCTTCTCATCACTCACTTTCACTTGGATCATGCTGCGTCCTTGCCCTACTTCCTCGAGAAAACCACCTTCAGAGGCCGCGTTTTCATGACCTACGCCACTAAGGCCATCTACAAGCTCCTCTTGTCTGACTTTGTCAAAGTCAGCAAGGTCTCCGTCGAAGATATGCTTTTTGATGAACAGGACATCAATCGCTCCATGGATAAAATTGAGGTTATTGATTTCCATCAAACAGTGGAAGTGAATGGTATTCGATTCTGGTGTTATGCTGCAGGCCATGTCCTTGGTGCTGCTATGTTCATGGTTGACATAGCTGGTGTTCGAGTGCTATACACCGGAGACTATTCACGTGAAGAAGACCGCCATCTCCGTGCTGCTGAGATCCCACAGTTTTCCCCAGACGTATGCATCATAGAATCCACCTATGGTGTACAGCATCATCAGCCTCGCCACACACGAGAAAAACGCTTCACCGATGTTATCCACTCAACCATTTCTCAAGGGGGTCGTGTGTTGATTCCAGCATATGCCCTTGGCCGTGCACAGGAGCTCCTCCTCATCCTTGATGAATATTGGGCAAATCATCCTGAACTCCACAATATACCCATCTATTATGCTTCTCCACTTGCAAAAAAGTGTTTGACTGTTTATGAAACATACACCCTTTCCATGAATGACAGGGTCCAGAATGCAAAGTCAAATCCCTTTTCCTTCAAGCACATATCAGCTTTAAGTAGCATTGAAGTTTTCAAAGATGTAGGACCATCTGTGGTGATGGCAAGCCCTGGTGGGCTTCAGAGTGGCTTGTCGCGACAATTGTTCGATAAGTGGTGCTCTGATAAGAAAAATACTTGTGTTTTACCAGGATTTGTTGTTGAAGGGACATTGGCAAAAACCATCATGACTGAACCAAAGGAAGTGACTCTCATGAATGGACTCTCTGCACCTCTTAACATGCAGGTGCACTACATTTCCTTTTCTGCTCATGCTGACTCTGCTCAAACAAGTGCGTTCTTAGAAGAGCTCAATCCTCCTAACATAATTCTCGTTCATGGGGAAGCTAATCAGATGGGCAGGCTCAAACAGAAGCTCACAAGTCAATTTGCTGATCGCAACACCAAAATCCTTACTCCTAAAAACTGTCAATCTGTAGAAATGCATTTCAATTCACAGAAAATGGCAAAAACCATAGGGAGGCTGGCTGAAAAAACACCAGAAGTTGGTGAAACTGTCAGTGGTTTGCTAGTAAAAAAAGGCTTCACATATCAGATAATGGCACCTGATGATCTTCATGTCTTTTCACAGCTATCAACAACAAACATAACTCAGAGAATTACCGTTCCTTACTCTGGTGCCTTTAGTTTCATACAGCATAGACTCAAACGGATATATGAGAGTGTAGAGCAGTCAGTGGATGAAGAATCTGGAGTTCCAGAATTGCAAGTTCATGAGTGTGTTACTGTGAAGCATGAAGCTGAAAAGCATATCTCCTTGCATTGGACATCAGACCCCATTAGTGACATGGTATCAGATTCAATTGTTGCTCTGATTTTAAATATCAACCGTGATGTCCCCAAAATAATGGCTGAATCTGATGTGATTAAAATTGAGGAAGAGAATAAGAAGAAGGCTGAGAAAGTTATGCACGCCCTCCTTGTTTCACTCTTTGGAGATGTGAAGGCAGGTGAAAACGGGAAATTGATAATTAACATTGATGGGAATGTAGCAGTGCTCAACAAAGAAAGTGGGGAAGTTGAGAGTGAAAACGAAGGTCTCAAGGAAAGAGTAAGAGCAGCTTTCCAGCGCATTCAAAGTTCTGTAAAGCCAATTCCTCTATCTGCACCGTAA
>Glyma08g20140.1 sequence type=predicted peptide gene model=Glyma08g20140 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MMDCGVKRRESVREEDDEVMIVTPLGAGNEVGRSCVYMSYKGKSILFDCGIHLGFSGMSALPYFDEIDPSTLDVLLITHFHLDHAASLPYFLEKTTFRGRVFMTYATKAIYKLLLSDFVKVSKVSVEDMLFDEQDINRSMDKIEVIDFHQTVEVNGIRFWCYAAGHVLGAAMFMVDIAGVRVLYTGDYSREEDRHLRAAEIPQFSPDVCIIESTYGVQHHQPRHTREKRFTDVIHSTISQGGRVLIPAYALGRAQELLLILDEYWANHPELHNIPIYYASPLAKKCLTVYETYTLSMNDRVQNAKSNPFSFKHISALSSIEVFKDVGPSVVMASPGGLQSGLSRQLFDKWCSDKKNTCVLPGFVVEGTLAKTIMTEPKEVTLMNGLSAPLNMQVHYISFSAHADSAQTSAFLEELNPPNIILVHGEANQMGRLKQKLTSQFADRNTKILTPKNCQSVEMHFNSQKMAKTIGRLAEKTPEVGETVSGLLVKKGFTYQIMAPDDLHVFSQLSTTNITQRITVPYSGAFSFIQHRLKRIYESVEQSVDEESGVPELQVHECVTVKHEAEKHISLHWTSDPISDMVSDSIVALILNINRDVPKIMAESDVIKIEEENKKKAEKVMHALLVSLFGDVKAGENGKLIINIDGNVAVLNKESGEVESENEGLKERVRAAFQRIQSSVKPIPLSAP*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
|
|
|
