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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT5G57120 | AT | Annotation by Michelle Graham. TAIR10: FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: nucleolus; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: LisH dimerisation motif (InterPro:IPR006594), SRP40, C-terminal (InterPro:IPR007718); Has 101969 Blast hits to 55488 proteins in 2506 species: Archae - 424; Bacteria - 13843; Metazoa - 37674; Fungi - 9726; Plants - 4941; Viruses - 569; Other Eukaryotes - 34792 (source: NCBI BLink). | chr5:23122 | SoyBase | E_val: 7.00E-30 | ISS |
| GO:0008150 | GO-bp | Annotation by Michelle Graham. GO Biological Process: biological process | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0005730 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleolus | SoyBase | N/A | ISS |
| GO:0003674 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: molecular function | SoyBase | N/A | ISS |
| PTHR23216 | Panther | NUCLEOLAR AND COILED-BODY PHOSPHOPROTEIN 1 | JGI | ISS | |
| PF05022 | PFAM | SRP40, C-terminal domain | JGI | ISS | |
| PF08513 | PFAM | LisH | JGI | ISS | |
| UniRef100_G7JTA5 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Nucleolar and coiled-body phosphoprotein n=1 Tax=Medicago truncatula RepID=G7JTA5_MEDTR | SoyBase | E_val: 2.00E-98 | ISS |
| UniRef100_I1MSK1 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=2 Tax=Glycine max RepID=I1MSK1_SOYBN | SoyBase | E_val: 0 | ISS |
|
Glyma17g06540 not represented in the dataset |
Glyma17g06540 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 |
|---|---|---|
| Glyma13g00430 | 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.17g058000 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma17g06540.2 sequence type=transcript gene model=Glyma17g06540 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high TGTCAGAAATGTAATTATATATGGTTTTCTTGGCCCGTTAGCACTTTGCAGGGAAAGGGTGTTGATAAAACCCTAATTGAACCCTTCTTCTAAAGTTGTGTGGCAGTTGCAGCGCGGTGGTTCACACTTCACACGGAGAACGGAGTCGGAGGATCCGTTTTCGCATGCCTGCAACCCCACCGAGTAACAAAGGAAGAATCTCTACCCTCTTCGCTTTCACTTCTCGCCAAGTTTAGTTAAGCAACCAGACAATGAAGCACACTGACAATGGAGCTTTCAACTCGGAACACAAAGTTCTTCTTCACCAATCCATTGCCCGTTACTTGAAACACAGTGGCTTCTCCAAAACCCTAAAAAAGTTTCGCTCTGAAGCGCAATTCGAGAAAAATGATTTGAAGGGATCCCCAGTTGATCTGGAAGAAATGTGCCTCAAGTATTTTGAAATATGTGGCAAAGATGCCAAGTCAAATCTTAATGATCAGAATGAGCAAGGTGTCAACAGCAAAAACAAAGAAGAGGGTAAATCCAAGGAAAAGAAGAAAAAGAAAAGCAAGTTAGTTTCTGAATCTCTTGCCACTAATGTGGAAGATGATCAATTAGAGTCAGTAGCTACTGCTAAAGAAAATAAAGAAAAGGATGATGTTTCTACAGATGCCAAAGTTATTAATGGTTCTGAGACAGAGAAAAAATCCAAGTCTAAAATGAAAAAGAAGGACAATCGAAGTGATGAAGGTGATGCAATAGAGCAGATTGGAGATCCCAATGAAACTGTTTCAAAGGAAGAGAATATTGAAGCAAACAAAGAAATTACACATGAGGAGAAGAAAGATTCTAAGAAAAGAAAAAGATCGATTTCTGAAGAAAATGGTCAACAAGTTGCAGATATAAAGGCAGATGAAGAAACCAAACGCAGAAAAATAGAAAATTTGAATGAATCTAAGGAGCAAACCAATGGGAACCTTGAGAAGGCTGGAGAGAAATCTTCTGTACAGAGTTCTCAGAAGAAACAACAAAAGGGATCAGTTGAGAAAAAACCAGTTAATGCAGCATTTCAGCGAGTACAAGTTGACAAGATACAATTTGCTGATGAGAGGCTTCAGGATAACTCTTATTGGGCAAAGGATGGTGCCGAGAATGGTTATGGTGCTAAAGCAGCAGAAATTCTCGATCAAGTTAGAGGAAGGGGTTTTCGTCATGAGAAGACTAAGAAGAAACGTGGAAGCTACCGGGGAGGACAGATTGATTTACAATCCCACTCAGTAAAGTTTAATTATTCTGATGAGGACTGATTGACGATATTGTTTTATTTTGTGGGGGACTGCGCAGTATTGTACTATTGTTGTCCTTATTTCGTTACCATCAGACACAAAGCGAATCATGCTGCGGATATGAAATTTGTGATGGGGGAGAATGTTACATCCAAAAGACATTGCTAGGTTCTGGTAAACAAGTTGACTTTCACCTGTATGTTTTCTTTGTGATTTTTGCTGTCCGTTCCCAAAGGAACGAGAATTTTTGTAGCTGGCAAAATGAAGACACCTTTCTGTCTGAATTTGTGATACTATATACCATGCAGTTTTAATTTTAAGGCCGTGAAATTTCAGTAATTGCTGCCGATGATGAACGAGATCTGTAATTGGTTTTCAATTTAATTTTTTTTTGCTTCGTCACTATTGGCTCCTTCAGGACTCAATACATATTTATTAATTTACTTT
>Glyma17g06540.1 sequence type=CDS gene model=Glyma17g06540 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGAAGCACACTGACAATGGAGCTTTCAACTCGGAACACAAAGTTCTTCTTCACCAATCCATTGCCCGTTACTTGAAACACAGTGGCTTCTCCAAAACCCTAAAAAAGTTTCGCTCTGAAGCGCAATTCGAGAAAAATGATTTGAAGGGATCCCCAGTTGATCTGGAAGAAATGTGCCTCAAGTATTTTGAAATATGTGGCAAAGATGCCAAGTCAAATCTTAATGATCAGAATGAGCAAGTTGCAGGTGTCAACAGCAAAAACAAAGAAGAGGGTAAATCCAAGGAAAAGAAGAAAAAGAAAAGCAAGTTAGTTTCTGAATCTCTTGCCACTAATGTGGAAGATGATCAATTAGAGTCAGTAGCTACTGCTAAAGAAAATAAAGAAAAGGATGATGTTTCTACAGATGCCAAAGTTATTAATGGTTCTGAGACAGAGAAAAAATCCAAGTCTAAAATGAAAAAGAAGGACAATCGAAGTGATGAAGGTGATGCAATAGAGCAGATTGGAGATCCCAATGAAACTGTTTCAAAGGAAGAGAATATTGAAGCAAACAAAGAAATTACACATGAGGAGAAGAAAGATTCTAAGAAAAGAAAAAGATCGATTTCTGAAGAAAATGGTCAACAAGTTGCAGATATAAAGGCAGATGAAGAAACCAAACGCAGAAAAATAGAAAATTTGAATGAATCTAAGGAGCAAACCAATGGGAACCTTGAGAAGGCTGGAGAGAAATCTTCTGTACAGAGTTCTCAGAAGAAACAACAAAAGGGATCAGTTGAGAAAAAACCAGTTAATGCAGCATTTCAGCGAGTACAAGTTGACAAGATACAATTTGCTGATGAGAGGCTTCAGGATAACTCTTATTGGGCAAAGGATGGTGCCGAGAATGGTTATGGTGCTAAAGCAGCAGAAATTCTCGATCAAGTTAGAGGAAGGGGTTTTCGTCATGAGAAGACTAAGAAGAAACGTGGAAGCTACCGGGGAGGACAGATTGATTTACAATCCCACTCAGTAAAGTTTAATTATTCTGATGAGGACTGA >Glyma17g06540.2 sequence type=CDS gene model=Glyma17g06540 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGAAGCACACTGACAATGGAGCTTTCAACTCGGAACACAAAGTTCTTCTTCACCAATCCATTGCCCGTTACTTGAAACACAGTGGCTTCTCCAAAACCCTAAAAAAGTTTCGCTCTGAAGCGCAATTCGAGAAAAATGATTTGAAGGGATCCCCAGTTGATCTGGAAGAAATGTGCCTCAAGTATTTTGAAATATGTGGCAAAGATGCCAAGTCAAATCTTAATGATCAGAATGAGCAAGGTGTCAACAGCAAAAACAAAGAAGAGGGTAAATCCAAGGAAAAGAAGAAAAAGAAAAGCAAGTTAGTTTCTGAATCTCTTGCCACTAATGTGGAAGATGATCAATTAGAGTCAGTAGCTACTGCTAAAGAAAATAAAGAAAAGGATGATGTTTCTACAGATGCCAAAGTTATTAATGGTTCTGAGACAGAGAAAAAATCCAAGTCTAAAATGAAAAAGAAGGACAATCGAAGTGATGAAGGTGATGCAATAGAGCAGATTGGAGATCCCAATGAAACTGTTTCAAAGGAAGAGAATATTGAAGCAAACAAAGAAATTACACATGAGGAGAAGAAAGATTCTAAGAAAAGAAAAAGATCGATTTCTGAAGAAAATGGTCAACAAGTTGCAGATATAAAGGCAGATGAAGAAACCAAACGCAGAAAAATAGAAAATTTGAATGAATCTAAGGAGCAAACCAATGGGAACCTTGAGAAGGCTGGAGAGAAATCTTCTGTACAGAGTTCTCAGAAGAAACAACAAAAGGGATCAGTTGAGAAAAAACCAGTTAATGCAGCATTTCAGCGAGTACAAGTTGACAAGATACAATTTGCTGATGAGAGGCTTCAGGATAACTCTTATTGGGCAAAGGATGGTGCCGAGAATGGTTATGGTGCTAAAGCAGCAGAAATTCTCGATCAAGTTAGAGGAAGGGGTTTTCGTCATGAGAAGACTAAGAAGAAACGTGGAAGCTACCGGGGAGGACAGATTGATTTACAATCCCACTCAGTAAAGTTTAATTATTCTGATGAGGACTGA
>Glyma17g06540.1 sequence type=predicted peptide gene model=Glyma17g06540 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MKHTDNGAFNSEHKVLLHQSIARYLKHSGFSKTLKKFRSEAQFEKNDLKGSPVDLEEMCLKYFEICGKDAKSNLNDQNEQVAGVNSKNKEEGKSKEKKKKKSKLVSESLATNVEDDQLESVATAKENKEKDDVSTDAKVINGSETEKKSKSKMKKKDNRSDEGDAIEQIGDPNETVSKEENIEANKEITHEEKKDSKKRKRSISEENGQQVADIKADEETKRRKIENLNESKEQTNGNLEKAGEKSSVQSSQKKQQKGSVEKKPVNAAFQRVQVDKIQFADERLQDNSYWAKDGAENGYGAKAAEILDQVRGRGFRHEKTKKKRGSYRGGQIDLQSHSVKFNYSDED* >Glyma17g06540.2 sequence type=predicted peptide gene model=Glyma17g06540 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MKHTDNGAFNSEHKVLLHQSIARYLKHSGFSKTLKKFRSEAQFEKNDLKGSPVDLEEMCLKYFEICGKDAKSNLNDQNEQGVNSKNKEEGKSKEKKKKKSKLVSESLATNVEDDQLESVATAKENKEKDDVSTDAKVINGSETEKKSKSKMKKKDNRSDEGDAIEQIGDPNETVSKEENIEANKEITHEEKKDSKKRKRSISEENGQQVADIKADEETKRRKIENLNESKEQTNGNLEKAGEKSSVQSSQKKQQKGSVEKKPVNAAFQRVQVDKIQFADERLQDNSYWAKDGAENGYGAKAAEILDQVRGRGFRHEKTKKKRGSYRGGQIDLQSHSVKFNYSDED*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
|
|
|
