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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT3G43920 | AT | Annotation by Michelle Graham. TAIR10: dicer-like 3 | chr3:15753548-15760830 FORWARD LENGTH=1580 | SoyBase | E_val: 0 | 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:0006396 | GO-bp | Annotation by Michelle Graham. GO Biological Process: RNA processing | SoyBase | N/A | ISS |
| GO:0007267 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cell-cell signaling | SoyBase | N/A | ISS |
| GO:0009616 | GO-bp | Annotation by Michelle Graham. GO Biological Process: virus induced gene silencing | SoyBase | N/A | ISS |
| GO:0009855 | GO-bp | Annotation by Michelle Graham. GO Biological Process: determination of bilateral symmetry | SoyBase | N/A | ISS |
| GO:0009887 | GO-bp | Annotation by Michelle Graham. GO Biological Process: organ morphogenesis | SoyBase | N/A | ISS |
| GO:0009944 | GO-bp | Annotation by Michelle Graham. GO Biological Process: polarity specification of adaxial/abaxial axis | SoyBase | N/A | ISS |
| GO:0010014 | GO-bp | Annotation by Michelle Graham. GO Biological Process: meristem initiation | SoyBase | N/A | ISS |
| GO:0010050 | GO-bp | Annotation by Michelle Graham. GO Biological Process: vegetative phase change | SoyBase | N/A | ISS |
| GO:0010051 | GO-bp | Annotation by Michelle Graham. GO Biological Process: xylem and phloem pattern formation | SoyBase | N/A | ISS |
| GO:0010073 | GO-bp | Annotation by Michelle Graham. GO Biological Process: meristem maintenance | SoyBase | N/A | ISS |
| GO:0010075 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of meristem growth | SoyBase | N/A | ISS |
| GO:0010216 | GO-bp | Annotation by Michelle Graham. GO Biological Process: maintenance of DNA methylation | 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:0030422 | GO-bp | Annotation by Michelle Graham. GO Biological Process: production of siRNA involved in RNA interference | SoyBase | N/A | ISS |
| GO:0031047 | GO-bp | Annotation by Michelle Graham. GO Biological Process: 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:0048439 | GO-bp | Annotation by Michelle Graham. GO Biological Process: flower morphogenesis | SoyBase | N/A | ISS |
| GO:0048519 | GO-bp | Annotation by Michelle Graham. GO Biological Process: negative regulation of biological process | SoyBase | N/A | ISS |
| GO:0051607 | GO-bp | Annotation by Michelle Graham. GO Biological Process: defense response to virus | 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:0003676 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: nucleic acid binding | SoyBase | N/A | ISS |
| GO:0003723 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: RNA binding | SoyBase | N/A | ISS |
| GO:0003725 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: double-stranded RNA binding | SoyBase | N/A | ISS |
| GO:0004386 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: helicase activity | SoyBase | N/A | ISS |
| GO:0004525 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: ribonuclease III activity | SoyBase | N/A | ISS |
| GO:0005515 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: protein binding | SoyBase | N/A | ISS |
| GO:0005524 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: ATP binding | SoyBase | N/A | ISS |
| GO:0008026 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: ATP-dependent helicase activity | SoyBase | N/A | ISS |
| KOG0701 | KOG | dsRNA-specific nuclease Dicer and related ribonucleases | JGI | ISS | |
| PTHR14950 | Panther | HELICASE-RELATED | JGI | ISS | |
| PTHR14950:SF1 | Panther | gb def: dead box helicase [caenorhabditis elegans] | JGI | ISS | |
| PF00270 | PFAM | DEAD/DEAH box helicase | JGI | ISS | |
| PF00271 | PFAM | Helicase conserved C-terminal domain | JGI | ISS | |
| PF00636 | PFAM | RNase3 domain | JGI | ISS | |
| PF02170 | PFAM | PAZ domain | JGI | ISS | |
| PF03368 | PFAM | Double stranded RNA binding domain | JGI | ISS | |
| UniRef100_G7J946 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Endoribonuclease Dicer-like protein n=1 Tax=Medicago truncatula RepID=G7J946_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_UPI0002339809 | UniRef | Annotation by Michelle Graham. Best UniRef hit: UPI0002339809 related cluster n=1 Tax=unknown RepID=UPI0002339809 | SoyBase | E_val: 0 | ISS |
|
Glyma04g06060 not represented in the dataset |
Glyma04g06060 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 |
|---|---|---|
| Glyma06g06061 | 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.04g057400 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma04g06060.2 sequence type=CDS gene model=Glyma04g06060 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGAATTCCAACATTGATTCAACAGACCATAGCCAGGATCAAAGCAGAAAACGAAACCTACCCGATGCTGATGATTCTCCGGCGCCGAATTTCCACATTGATTCATCAGACCATAACCAGGACCAAAGTAAAAAACGAAAGCAACCCAATGATGAAGATTCTCCATCGCTTGAATCGCCTTGTTCCAACATGAACCCCAGAAGGTATCAGATAGAGGTGTATGAAGTTGCAAGGAGAAGGAACACTATAGCTGTGTTGGATACAGGGTCAGGTAAGACCCTGATTGCTGTAATGCTTATGAAAGAGGTTGGTCAAGCCATCAAGACTAGTGGTGTAAAGAAGCTGATTATTTTCTTGGCTCCCACAGTTCATCTTGTCAATCAGCAATTCAAGAATATAAAATTTCTGACTGATTTTCAAGTTGAGGAATACTATGGGGCTAAAGGAGTTGATACATGGACTTTGAAGACGTGGGAGAAGGAGATTAGTAACAATGATGTTCTGGTTATGACACCCCAGATTCTTTTGGATGCGTTAAGAAAAGCATTCCTGCGTATGGAAATGATATGCTTGATTGTTATTGATGAATGTCATAGAACAATTGGCAATCATCCTTATACAAAAATAATGAAGGAATTTTATCACCAAGCTAATGAAAAGCCAAAGATTTTTGGGATGACAGCATCACCTGTTGGTAAAAAAGGTGTTTCCTCTACTATGGATTGTGAGGATCAGATATCAGAACTTGAAAGCATCTTGGATTCTCAGAGATATACTGTTGAAGATCGGACAGAGATGGATAGGTGTGTCCCATCTGCTAAAGAGAGTTGTAGATATTATGACCAAGCACGATTTTCTGCTTTGAGTTTGAAACCAAAGATTGAAGCCTTGTCGTTCAAGTTTGATGCATTGTTATCAGAAAATCAAAGTAACTATAAGGATGTGGAAAATAAATTTAAGACACTTTCTCAGCGGATGTCCAATGAACTTGCAAAAATTTTACATTGCCTTGAAGATCTTGGGATCCTATGTGCTTATGAGGCTGTTAAAATCTGTCATGAGAATTTTTCCAAATCTGAAGGAGAGTGTGAAATTTACAGAAAAGGTTATCTTCAATGTATAACTTTTCTTGAAGAAGTAATCAAATTAATCGAAGAATCCCTCCATCTTGCTGATAAAAAGATTTTGGAGGTTGATTTTAATTATTCTCAGGCAGAAGATTTGGGATACATATCTCCCAAATTAATTGAACTTATTAAACTCTTTCAGTCATTTGGAGAATCTAGTCAGGTGTTGTGCCTTATTTTTGTTGATAGAATCATTACCGCAAAGGTGATCCAAAGATTCGCAAAGACAGTTCCCAATATTTCTCATTTCACAGTTTCCTATTTAACTGGTAACAATACATCGGTTGATGCTCTGGCTCCTAAGAGGCAGAAGGAGATATTGGATTCTTTCCGCTCTGGAAAGGTCAATCTATTATTTACTACTGATGTACTTGAGGAAGGAATTCATGTGCCAAACTGCTCATGTGTGATACGTTTTGACCTCCCAAAGACAGTTCGTAGTTATGTCCAATCTCGTGGAAGATCTAGGCAGGCAAACTCCCAATTTGTTGTGATGTTGGAGAGGGGAAACTTGAAGCAAAGAGATCAACTCTTTGATATCATTAGGAGTGAGCGGTCCATGACTGATGCATCTATTTATAAAGAACATGAATCTAGTTTAAGGGCATGTATGGTGGGGAAAACAAATGCATACTATGTGGAATCCACTGGAGCATCTTTCACTTTAGATTCTAGTGTTAGTCTCATCCACCGATACTGTGGAACACTCCCTCGAGATAAGTACTCCTGTGTAAAGCCCAATTTTGAGTTTCTGTCTGTGGAAGGGGGTTATCAGTGTAAATTAATATTACCATCTAATTCAGCTTTCCAAACAATAATTGGTCCTTCTGGAAAAGATATGCGTTTGGCAAAGCATCTTGCATGTTTCGAAGCTTGTAAGAAGCTGCATCAAATGGGTGCCTTAAATGAACATTTGGTTCCATTAATTGAAGATTCTTCAGAAGATGACCATATTGTGAAAAATAAAGAATCAAGTTCTGGTGCAGGGACCACAAAAAGAAAGGAGTTACATGGAAAAGCTAACATTCATGCATTAAGTGGTGCATGGGGAGACAAACTCACTAGAGTCAAATTTAATGCGTATAAATTTGAATTCACATGTAATATTGTAAGTGAAATATACTCTGGGTTTGCTCTTTTGATTGAGTCAGAGCTTGATGAGGATGTGGGAAATGTAAATTTAGATCTTTATTTAGTCTCAAAGATTGTGAAAGCTTCCGTCTCTTCATGTGGGCAAGTTGATTTGGATGCTGAACAGATGATGAGAGCAAAATGCTTCCATGAGCTTTTTTTCAATGGTTTGTTTGGGAGACTGGTCTTGAAGTCCAAATCAGCAGGAGAAAGGGAATTTTTACTTCAGAAAGACACAAACTCATTGTGGAGCCCAAAACACTTGTATTTGCTTCTACCACTAGAGAAATTGAATGATATCTGTGAGGGATCTTTGCAAATTAATTGGTGTGGAATTAATTCTTGTGCTTCTGCTATCAAATTTTTAAGGAGGAAATTTTCTTTGGTCACTGGAGATTGTGATGATAACGGCACAATCACATCACCTCATGATACCAGTTCATCAGAGATGGAATGTGTAGGAGCAAACAAGATTCACTTTGCTAATTGTGTGGTTGATGCTGATAATATAAAAGACAGGGTAGTTTTGGCCATTCACACTGGGAAAATATATTGTATTATTGAGATCGACAGTAACCTATCTGCTGAAAGTCCTTTCTATGGAAACAATGAAAAATCAAAGGAAAGCATTACCTTCTCGGATTATTTCAGCAAAAGTTATGGAATTTCACTGAGACATCCTGGACAGCCTATGTTACGGTTGAAGCAAAGTCATAATCCACACAATCTTCTTTTCAACTTCTATGAGGAAGATGCACGAGACAAGTCATCAAAAATTGGCCCTGCAGCCTCAAAATTGCCAGTGCATGTTCATATTCCTCCCGAGCTTCTATACATTCTTGATGTTAAAAGAGATGTGTTGAAATCACTGTACTTGCTGCCATCTCTGATGTACCGCATTGAATCTTTGATGTTATCTAGTCAGCTTAGAGAAGAGATAGATGGTCAAACTAGCAAGTTCAACATACGTAGCTCACTGATTCTAGAATCACTTACAACTTTGAGATGTAGTGAAAGTTTTTCAATGGAACGTCTTGAGTTGCTAGGAGATTCTGTTTTGAAGTATGTGGTGAGTTGTCACCTCTTTCTTAAATATCCTAAAAAACACGAAGGACAATTATCTGCCAGACGATCATCGGCTGTTTGTAACTCAACCCTACATAAACTGGGGACAGATCGCAAATTACAGGGATATATTCGAGACTCTGCTTTTGAACCACGCCGTTGGGTTGCTCCAGGACAGCGTTCTATACACCTTGTTTGTTGTGATTGTGGGTTGGAAACCCTTGAAGTGCCTTTAGATGCAAAATTCCATACTGAAGATCCAAAAGTTGTGGTTGGGAAGTTTTGCGACAGAGGTCACTGCTGGATGTGTTCTAAGACTATTGCTGACTGTGTTGAAGCTCTGATAGGAGCATACTATGTAGATGGTGGACTTTTTGCTTCACTTAATGTGATGAAATGGCTTGGGATTGGTGCTGAACTTGAACTATCATTGGTTGATGAAGCAATCACTGCTGCATCTCTGCGTACATGTTTGCCAAAAGAAAGTGAGATTGCAAGCCTTGAAAAGAAAATTGGGTATGAATTTTCGGTCAAGGGACTCTTACTGGAGGCAATCACACATTTGTCTGAGAAAGAACTTGGGATTGGCTGCTGTTATGAGAGGCTTGAATTTCTAGGTGACTCGGTATTGGACCTGCTTATCACATGGCATCTTTATCAGAGTCACACAGATATTGATCCAGGGGTGTTGACTGACTTACGTTCTGCTTCTGTCAATAATGACAATTTTGCTCAAGTTGCTGTTAGACATAACCTTCACCAGCACCTTCTACATAGCTCAGGATTATTACTGAGCCAGATATCAGAATATGTGAAGGTCATTTCTGAATCAGATCCCAGATCACTTCCAAGTATTAGTGCTCCCAAGGCACTTGGAGATGTAGTGGAAAGTATAGTTGGGGCTATACTAATTGATACCAAGCTCAGTCTTGACCAAGTGTGGAACGTTTTCTATTCTCTATTATCTCCCATTGTTACTCCTGATAAACTTGAATTGCCTCCATTTCGTGAATTAAATGAATTATGTGATTCGCTCGGTTATTTTGTAAAAGTAAAAGAAAATTGTGAAAAAGTGGGATCAGCAATGCATGTTGAGGTTAGTGTACAACTTCCAAATGCCCTATTGGTTCGTGAAGGAAAGGGGGCAAATAAAAAAACTGCAAAAGGAGAAGCTGCTTTTTATTTGTTGAAGGATCTTGAGAAGCAGGGAATTTCACATGGTAGTTTCATGTCCAAGGGAAAAAGAGATAATCCTGACCATGTCTATGGTTCATCTCATCTCAAAATGGATTCTAGTATTCTAATTGAAGAACATTCCTCAGAGCCAGCATCACATAAAAGGCACATATTGGATGAAACTAACTTAACTGCAATTAATTTATCAATTAATATGAAGAAGGGAGGACCGCGGACCACATTATATGAAGTATGTAAGAAATTACAGTGGCCAGTGCCTACATTTGATTCAACAGAATATAAAGATAGATCTCTATTTGAATCCTGTGAGGGGCTGCAAGGAAGCAAGGGACAGAACTGCTTTGTGTCGAAAATTACCTTGTGCATACCCAATTATGGTAATATAGAAAGCAAAGGAGAAGCTAGAAGTGATAAGAAGACCTCCTTTGACTCTGCTGCAGTTCAAATGCTTCTTGAGCTGCAAAGACTGGGAAAAGTTGAAATTGATCCTCTCCCTTCTAGTTAG
>Glyma04g06060.2 sequence type=predicted peptide gene model=Glyma04g06060 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MNSNIDSTDHSQDQSRKRNLPDADDSPAPNFHIDSSDHNQDQSKKRKQPNDEDSPSLESPCSNMNPRRYQIEVYEVARRRNTIAVLDTGSGKTLIAVMLMKEVGQAIKTSGVKKLIIFLAPTVHLVNQQFKNIKFLTDFQVEEYYGAKGVDTWTLKTWEKEISNNDVLVMTPQILLDALRKAFLRMEMICLIVIDECHRTIGNHPYTKIMKEFYHQANEKPKIFGMTASPVGKKGVSSTMDCEDQISELESILDSQRYTVEDRTEMDRCVPSAKESCRYYDQARFSALSLKPKIEALSFKFDALLSENQSNYKDVENKFKTLSQRMSNELAKILHCLEDLGILCAYEAVKICHENFSKSEGECEIYRKGYLQCITFLEEVIKLIEESLHLADKKILEVDFNYSQAEDLGYISPKLIELIKLFQSFGESSQVLCLIFVDRIITAKVIQRFAKTVPNISHFTVSYLTGNNTSVDALAPKRQKEILDSFRSGKVNLLFTTDVLEEGIHVPNCSCVIRFDLPKTVRSYVQSRGRSRQANSQFVVMLERGNLKQRDQLFDIIRSERSMTDASIYKEHESSLRACMVGKTNAYYVESTGASFTLDSSVSLIHRYCGTLPRDKYSCVKPNFEFLSVEGGYQCKLILPSNSAFQTIIGPSGKDMRLAKHLACFEACKKLHQMGALNEHLVPLIEDSSEDDHIVKNKESSSGAGTTKRKELHGKANIHALSGAWGDKLTRVKFNAYKFEFTCNIVSEIYSGFALLIESELDEDVGNVNLDLYLVSKIVKASVSSCGQVDLDAEQMMRAKCFHELFFNGLFGRLVLKSKSAGEREFLLQKDTNSLWSPKHLYLLLPLEKLNDICEGSLQINWCGINSCASAIKFLRRKFSLVTGDCDDNGTITSPHDTSSSEMECVGANKIHFANCVVDADNIKDRVVLAIHTGKIYCIIEIDSNLSAESPFYGNNEKSKESITFSDYFSKSYGISLRHPGQPMLRLKQSHNPHNLLFNFYEEDARDKSSKIGPAASKLPVHVHIPPELLYILDVKRDVLKSLYLLPSLMYRIESLMLSSQLREEIDGQTSKFNIRSSLILESLTTLRCSESFSMERLELLGDSVLKYVVSCHLFLKYPKKHEGQLSARRSSAVCNSTLHKLGTDRKLQGYIRDSAFEPRRWVAPGQRSIHLVCCDCGLETLEVPLDAKFHTEDPKVVVGKFCDRGHCWMCSKTIADCVEALIGAYYVDGGLFASLNVMKWLGIGAELELSLVDEAITAASLRTCLPKESEIASLEKKIGYEFSVKGLLLEAITHLSEKELGIGCCYERLEFLGDSVLDLLITWHLYQSHTDIDPGVLTDLRSASVNNDNFAQVAVRHNLHQHLLHSSGLLLSQISEYVKVISESDPRSLPSISAPKALGDVVESIVGAILIDTKLSLDQVWNVFYSLLSPIVTPDKLELPPFRELNELCDSLGYFVKVKENCEKVGSAMHVEVSVQLPNALLVREGKGANKKTAKGEAAFYLLKDLEKQGISHGSFMSKGKRDNPDHVYGSSHLKMDSSILIEEHSSEPASHKRHILDETNLTAINLSINMKKGGPRTTLYEVCKKLQWPVPTFDSTEYKDRSLFESCEGLQGSKGQNCFVSKITLCIPNYGNIESKGEARSDKKTSFDSAAVQMLLELQRLGKVEIDPLPSS*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
|
|
|
