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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT3G05060 | AT | Annotation by Michelle Graham. TAIR10: NOP56-like pre RNA processing ribonucleoprotein | chr3:1413174-1415564 REVERSE LENGTH=533 | SoyBase | E_val: 0 | ISS |
| GO:0001510 | GO-bp | Annotation by Michelle Graham. GO Biological Process: RNA methylation | SoyBase | N/A | ISS |
| GO:0006164 | GO-bp | Annotation by Michelle Graham. GO Biological Process: purine nucleotide biosynthetic process | SoyBase | N/A | ISS |
| GO:0008150 | GO-bp | Annotation by Michelle Graham. GO Biological Process: biological process | SoyBase | N/A | ISS |
| GO:0009165 | GO-bp | Annotation by Michelle Graham. GO Biological Process: nucleotide biosynthetic process | SoyBase | N/A | ISS |
| GO:0009220 | GO-bp | Annotation by Michelle Graham. GO Biological Process: pyrimidine ribonucleotide biosynthetic 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:0016020 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: membrane | SoyBase | N/A | ISS |
| GO:0003677 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: DNA binding | SoyBase | N/A | ISS |
| KOG2572 | KOG | Ribosome biogenesis protein - Nop58p/Nop5p | JGI | ISS | |
| PTHR10894 | Panther | NUCLEOLAR PROTEIN NOP56 | JGI | ISS | |
| PF01798 | PFAM | Putative snoRNA binding domain | JGI | ISS | |
| PF08060 | PFAM | NOSIC (NUC001) domain | JGI | ISS | |
| PF08156 | PFAM | NOP5NT (NUC127) domain | JGI | ISS | |
| UniRef100_G7KC30 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: SAR DNA-binding protein-1 n=2 Tax=Medicago truncatula RepID=G7KC30_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_I1LQ02 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1LQ02_SOYBN | SoyBase | E_val: 0 | ISS |
|
Glyma12g04400 not represented in the dataset |
Glyma12g04400 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 |
|---|---|---|
| Glyma11g12200 | 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.12g040200 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma12g04400.2 sequence type=transcript gene model=Glyma12g04400 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATTAATAATAACATTCTTCCCCCATTATATATCGTTCTTGCCTCAAACAAAATAGTTTCGCTGCCGCCTCTTCTTCGAGTTGTAACCTCTCTCTTCAACCCTAACTTAGGGTTTATGTTCTAAAACCCTTTTCAGGTTGATTGGAGGAGATAAAAATGCTCGTGTTGTTTGAAACCCCTGCGGGTTTTGCCCTGTTTAAAGTGCTGGATGAAGGCAAGCTTTCTAAAGTTGAGGACTTGTGGAAGAACTTTTCCAGTGCAGATACTGCTAGACAGGTGGTCAAGTTGAAAGCATTTTCTAAATTTGAGAACACTTCAGAAGCTCTAGAGGCAGCTACTTTACTTATTGATGGAAAAGCTAGCAAGGGTCTGCGCAAGTTCCTGCGTGTTCATTGTGAAAATGAAACACTAGGTGTGGCAGATTCAAAGCTTGGGAATGTGATCAAGGAGAAATTGAAAATTGACTGTATTCACAACAATGCAGTTATGGAGTTGATGAGAGGCGTTAGAAATCAGTTAACTGAACTTATATCTGGTCTAGCTGTTCAAGACATGGCCCCAATGAGCTTGGGTTTATCTCACAGCTTATCCAGATACAAATTGAAGTTTAGTGCAGAGAAGGTGGATACCATGATTGTCCAGGCTATTGGTTTACTAGATGATCTTGATAAAGAGTTGAATACCTATGCCATGAGGGTTCGAGAATGGTATGGTTGGCATTTTCCCGAGCTTACTAAAATAATACAGGACAACATCCTATATGCCAGGGCAGTCAAGTTGATGGGTGATCGTGTTAATGCAGCTAACCTGGATTTCTCTGAGATTTTGCCAGAGGAAGTTGAGGCAGAGCTGAAGGAGGCATCTGTAATATCTATGGGAACTGAAATTGGTGAGCTTGATTTGGCAAATATTAGAGAACTCTGTGACCAGGTTTTGTCTCTCTCGGAATACAGGGCACAACTCTATGATTATTTGAAGAGTAGAATGAACACCATTGCACCCAATTTGACTGCAATGGTTGGGGAGCTTGTTGGTGCTCGCCTCATTGCCCATGGTGGTAGCTTATTAAATCTTGCAAAGCAGCCTGGCAGTACTGTGCAAATTCTTGGTGCTGAGAAGGCTCTCTTTAGGGCACTAAAGACTAAGCATGCTACTCCCAAGTATGGTCTTATATACCATGCTTCCTTGATTGGTCAGGCAGCTCCAAAGTTCAAGGGGAAAATTTCCCGGTCACTTGCAGCAAAGACGGCATTGGCTATTAGGTGTGATGCTCTTGGAGATAGCCAAGATAACACCATGGGATTGGAGAACAGAGCCAAGGTACTTGTTATATCTTGTATGGTTATATTGCTTTTTTCTTTCAGACTTTTAACAAGTTTTAGTTGCAGCTTGAAGCACGATTGAGGAACCTTGAAGGCAAAGAGTTAGGTCGTTTTGCTGGTTCTGCCAAGGGAAAGCCCAAGATAGAAGCATACGACAAGGACCGAAAGAAAGGAGCTGGAGGACTGATAACCCCGGCCAAGACATATAATCCTTCAGCTGATTCAGTTATTGGGCAAATGGTCAATTCTGCTATGGATGAAGATGCACAAGAGCCTTCTGTTGCTGATAAAAAGAAAGAAAAGAAAGAAAAGAAGGAAAAGAAGAAAAAGGAGAAAAATGAAGGGGATGAAACTGTGCAAGCTGATGGTGACGTTGGTGAGGAACCAGAACCAGAAGTTGTGAAAAAGGAAAAGAAGAAGAAAAGGAAGGAAACTGAGAGTGCTGAGTTGCAGAATGGGAATGACGATAATGCAGGAGAAAAGAAGAAAAAGAGAAAGAAGCATGCCGAGAAGGAAGAATCTCCTGAAATGCCAAGCAAGAAGAAAGGCAAAAAAAAGAAAAGTGGGGACTAAGGTGAAGTCATCTGCTAATCAATCTGGTGAATGACAACCATTTTTGTATACTCCGGGCAGCTCAGTAGTTTGTTTGGTATAATTTTTGTTTTCATTTTTATGCAATTTGTAGCTTTATACATCCTTTATTATTATTTAATGGGCTTGAGTGGATAATTTGATGCAATCATGTTTATGAATGGAAGATGGTGGTGCGCTACCCTTTGTAATGCTATTTTTTTACGCTTCTTTTCTGATTCACCTTCGCATAAGTAACGTGAGTTTA
>Glyma12g04400.1 sequence type=CDS gene model=Glyma12g04400 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGCTCGTGTTGTTTGAAACCCCTGCGGGTTTTGCCCTGTTTAAAGTGCTGGATGAAGGCAAGCTTTCTAAAGTTGAGGACTTGTGGAAGAACTTTTCCAGTGCAGATACTGCTAGACAGGTGGTCAAGTTGAAAGCATTTTCTAAATTTGAGAACACTTCAGAAGCTCTAGAGGCAGCTACTTTACTTATTGATGGAAAAGCTAGCAAGGGTCTGCGCAAGTTCCTGCGTGTTCATTGTGAAAATGAAACACTAGGTGTGGCAGATTCAAAGCTTGGGAATGTGATCAAGGAGAAATTGAAAATTGACTGTATTCACAACAATGCAGTTATGGAGTTGATGAGAGGCGTTAGAAATCAGTTAACTGAACTTATATCTGGTCTAGCTGTTCAAGACATGGCCCCAATGAGCTTGGGTTTATCTCACAGCTTATCCAGATACAAATTGAAGTTTAGTGCAGAGAAGGTGGATACCATGATTGTCCAGGCTATTGGTTTACTAGATGATCTTGATAAAGAGTTGAATACCTATGCCATGAGGGTTCGAGAATGGTATGGTTGGCATTTTCCCGAGCTTACTAAAATAATACAGGACAACATCCTATATGCCAGGGCAGTCAAGTTGATGGGTGATCGTGTTAATGCAGCTAACCTGGATTTCTCTGAGATTTTGCCAGAGGAAGTTGAGGCAGAGCTGAAGGAGGCATCTGTAATATCTATGGGAACTGAAATTGGTGAGCTTGATTTGGCAAATATTAGAGAACTCTGTGACCAGGTTTTGTCTCTCTCGGAATACAGGGCACAACTCTATGATTATTTGAAGAGTAGAATGAACACCATTGCACCCAATTTGACTGCAATGGTTGGGGAGCTTGTTGGTGCTCGCCTCATTGCCCATGGTGGTAGCTTATTAAATCTTGCAAAGCAGCCTGGCAGTACTGTGCAAATTCTTGGTGCTGAGAAGGCTCTCTTTAGGGCACTAAAGACTAAGCATGCTACTCCCAAGTATGGTCTTATATACCATGCTTCCTTGATTGGTCAGGCAGCTCCAAAGTTCAAGGGGAAAATTTCCCGGTCACTTGCAGCAAAGACGGCATTGGCTATTAGGTGTGATGCTCTTGGAGATAGCCAAGATAACACCATGGGATTGGAGAACAGAGCCAAGCTTGAAGCACGATTGAGGAACCTTGAAGGCAAAGAGTTAGGTCGTTTTGCTGGTTCTGCCAAGGGAAAGCCCAAGATAGAAGCATACGACAAGGACCGAAAGAAAGGAGCTGGAGGACTGATAACCCCGGCCAAGACATATAATCCTTCAGCTGATTCAGTTATTGGGCAAATGGTCAATTCTGCTATGGATGAAGATGCACAAGAGCCTTCTGTTGCTGATAAAAAGAAAGAAAAGAAAGAAAAGAAGGAAAAGAAGAAAAAGGAGAAAAATGAAGGGGATGAAACTGTGCAAGCTGATGGTGACGTTGGTGAGGAACCAGAACCAGAAGTTGTGAAAAAGGAAAAGAAGAAGAAAAGGAAGGAAACTGAGAGTGCTGAGTTGCAGAATGGGAATGACGATAATGCAGGAGAAAAGAAGAAAAAGAGAAAGAAGCATGCCGAGAAGGAAGAATCTCCTGAAATGCCAAGCAAGAAGAAAGGCAAAAAAAAGAAAAGTGGGGACTAA >Glyma12g04400.2 sequence type=CDS gene model=Glyma12g04400 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGCTCGTGTTGTTTGAAACCCCTGCGGGTTTTGCCCTGTTTAAAGTGCTGGATGAAGGCAAGCTTTCTAAAGTTGAGGACTTGTGGAAGAACTTTTCCAGTGCAGATACTGCTAGACAGGTGGTCAAGTTGAAAGCATTTTCTAAATTTGAGAACACTTCAGAAGCTCTAGAGGCAGCTACTTTACTTATTGATGGAAAAGCTAGCAAGGGTCTGCGCAAGTTCCTGCGTGTTCATTGTGAAAATGAAACACTAGGTGTGGCAGATTCAAAGCTTGGGAATGTGATCAAGGAGAAATTGAAAATTGACTGTATTCACAACAATGCAGTTATGGAGTTGATGAGAGGCGTTAGAAATCAGTTAACTGAACTTATATCTGGTCTAGCTGTTCAAGACATGGCCCCAATGAGCTTGGGTTTATCTCACAGCTTATCCAGATACAAATTGAAGTTTAGTGCAGAGAAGGTGGATACCATGATTGTCCAGGCTATTGGTTTACTAGATGATCTTGATAAAGAGTTGAATACCTATGCCATGAGGGTTCGAGAATGGTATGGTTGGCATTTTCCCGAGCTTACTAAAATAATACAGGACAACATCCTATATGCCAGGGCAGTCAAGTTGATGGGTGATCGTGTTAATGCAGCTAACCTGGATTTCTCTGAGATTTTGCCAGAGGAAGTTGAGGCAGAGCTGAAGGAGGCATCTGTAATATCTATGGGAACTGAAATTGGTGAGCTTGATTTGGCAAATATTAGAGAACTCTGTGACCAGGTTTTGTCTCTCTCGGAATACAGGGCACAACTCTATGATTATTTGAAGAGTAGAATGAACACCATTGCACCCAATTTGACTGCAATGGTTGGGGAGCTTGTTGGTGCTCGCCTCATTGCCCATGGTGGTAGCTTATTAAATCTTGCAAAGCAGCCTGGCAGTACTGTGCAAATTCTTGGTGCTGAGAAGGCTCTCTTTAGGGCACTAAAGACTAAGCATGCTACTCCCAAGTATGGTCTTATATACCATGCTTCCTTGATTGGTCAGGCAGCTCCAAAGTTCAAGGGGAAAATTTCCCGGTCACTTGCAGCAAAGACGGCATTGGCTATTAGGTGTGATGCTCTTGGAGATAGCCAAGATAACACCATGGGATTGGAGAACAGAGCCAAGGTACTTGTTATATCTTGTATGGTTATATTGCTTTTTTCTTTCAGACTTTTAACAAGTTTTAGTTGCAGCTTGAAGCACGATTGA
>Glyma12g04400.1 sequence type=predicted peptide gene model=Glyma12g04400 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MLVLFETPAGFALFKVLDEGKLSKVEDLWKNFSSADTARQVVKLKAFSKFENTSEALEAATLLIDGKASKGLRKFLRVHCENETLGVADSKLGNVIKEKLKIDCIHNNAVMELMRGVRNQLTELISGLAVQDMAPMSLGLSHSLSRYKLKFSAEKVDTMIVQAIGLLDDLDKELNTYAMRVREWYGWHFPELTKIIQDNILYARAVKLMGDRVNAANLDFSEILPEEVEAELKEASVISMGTEIGELDLANIRELCDQVLSLSEYRAQLYDYLKSRMNTIAPNLTAMVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEKALFRALKTKHATPKYGLIYHASLIGQAAPKFKGKISRSLAAKTALAIRCDALGDSQDNTMGLENRAKLEARLRNLEGKELGRFAGSAKGKPKIEAYDKDRKKGAGGLITPAKTYNPSADSVIGQMVNSAMDEDAQEPSVADKKKEKKEKKEKKKKEKNEGDETVQADGDVGEEPEPEVVKKEKKKKRKETESAELQNGNDDNAGEKKKKRKKHAEKEESPEMPSKKKGKKKKSGD* >Glyma12g04400.2 sequence type=predicted peptide gene model=Glyma12g04400 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MLVLFETPAGFALFKVLDEGKLSKVEDLWKNFSSADTARQVVKLKAFSKFENTSEALEAATLLIDGKASKGLRKFLRVHCENETLGVADSKLGNVIKEKLKIDCIHNNAVMELMRGVRNQLTELISGLAVQDMAPMSLGLSHSLSRYKLKFSAEKVDTMIVQAIGLLDDLDKELNTYAMRVREWYGWHFPELTKIIQDNILYARAVKLMGDRVNAANLDFSEILPEEVEAELKEASVISMGTEIGELDLANIRELCDQVLSLSEYRAQLYDYLKSRMNTIAPNLTAMVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEKALFRALKTKHATPKYGLIYHASLIGQAAPKFKGKISRSLAAKTALAIRCDALGDSQDNTMGLENRAKVLVISCMVILLFSFRLLTSFSCSLKHD*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
|
|
|
