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
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A newer version of this gene model can be found here:
| Database ID | Annotation Type | Annotation Description | Annotation Source | Match Score | Evidence Code |
|---|---|---|---|---|---|
| AT3G03300 | AT | Annotation by Michelle Graham. TAIR10: dicer-like 2 | chr3:768020-774833 REVERSE LENGTH=1388 | SoyBase | E_val: 6.00E-77 | ISS |
| GO:0000398 | GO-bp | Annotation by Michelle Graham. GO Biological Process: mRNA splicing, via spliceosome | 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:0006355 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent | 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: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:0010073 | GO-bp | Annotation by Michelle Graham. GO Biological Process: meristem maintenance | 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:0043687 | GO-bp | Annotation by Michelle Graham. GO Biological Process: post-translational protein modification | SoyBase | N/A | ISS |
| GO:0045893 | GO-bp | Annotation by Michelle Graham. GO Biological Process: positive regulation of transcription, DNA-dependent | SoyBase | N/A | ISS |
| GO:0051607 | GO-bp | Annotation by Michelle Graham. GO Biological Process: defense response to virus | SoyBase | N/A | ISS |
| GO:0005622 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: intracellular | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | 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 |
| GO:0016891 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: endoribonuclease activity, producing 5'-phosphomonoesters | SoyBase | N/A | ISS |
| PTHR14950 | Panther | HELICASE-RELATED | JGI | ISS | |
| PTHR14950:SF4 | Panther | DICER-RELATED | JGI | ISS | |
| PF00035 | PFAM | Double-stranded RNA binding motif | JGI | ISS | |
| PF00270 | PFAM | DEAD/DEAH box helicase | JGI | ISS | |
| UniRef100_G7IKX1 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Endoribonuclease Dicer n=1 Tax=Medicago truncatula RepID=G7IKX1_MEDTR | SoyBase | E_val: 2.00E-82 | ISS |
| UniRef100_UPI000233BA12 | UniRef | Annotation by Michelle Graham. Best UniRef hit: UPI000233BA12 related cluster n=1 Tax=unknown RepID=UPI000233BA12 | SoyBase | E_val: 0 | ISS |
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Glyma15g13891 not represented in the dataset |
Glyma15g13891 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 |
|---|---|---|
| Glyma09g02930 | 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.15g131500 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma15g13891.1 sequence type=CDS gene model=Glyma15g13891 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGAAGAAGTACTCTCATTGGAAGTGGATTCCAATACCCAGCAGCAGAAGATTACTGCTGATGTTCTTCCATTTGCAGGAAGCTATCAACTTGAAGCGTTGGACAATGCTATCCGTGAGAATACCATAGTGTACTTGGAGACTGGTTCTGGTAAGACTTTGATAGCCGTCATGCTTCTTCGCAGCTATGCTCATCATCTGCGAAAGCCTTCTCCTCAAATTTCAGTGTTCTTGGTTCCCCAAGTTGTGTTGGTCTCTCAACAAGCAGAAGCCGTGAAAAAGCACACCGATTTAAAAGTGGGAATGTTTTGGGGAGACATGGGAGTTGACTTCTGGGATGCTACTACCTGGAAACAAGAAGTAGAGAAACATGAGGTGTTTGTCATGACTCCTGCAATATTGCTGAATTGCTTGAGGCATAGCTTCTTGAAACTGAATTTGATAAAGGTTTTGATAATGGATGAATGCCATCATGCTAGGGGTAAACACCCTTACGCCTGCATCATGACTGTACTTGGAGATATCATAGAGTCTCTGGCTGGAGCGATTCTTGTTGATTCAAGATTCAATAAGGAGGTTGTGTGGCAAAGCATAAGGCCACTTTTGGAACCCCTTGTCACACCAGAAACACTGAAGCTCCATCCCATCCGAGAGTTGAATGAACTGTGCCAAAAAAGAAGTTATAAGATTGTACTAGAGGATGTGTCCCGCAAAGATGGTGTGACTAATTATAGAATGGAGCTAGAAGCAGATGGGGTCATTCACGAGTATGAGTATACCGGCCCTGCTCTTAGGGACACAGCCAAGAAGATAGCCTGCAAGGAAATTTTGAATTCCTTGAAGGAAGAAGAATTATAG
>Glyma15g13891.1 sequence type=predicted peptide gene model=Glyma15g13891 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MEEVLSLEVDSNTQQQKITADVLPFAGSYQLEALDNAIRENTIVYLETGSGKTLIAVMLLRSYAHHLRKPSPQISVFLVPQVVLVSQQAEAVKKHTDLKVGMFWGDMGVDFWDATTWKQEVEKHEVFVMTPAILLNCLRHSFLKLNLIKVLIMDECHHARGKHPYACIMTVLGDIIESLAGAILVDSRFNKEVVWQSIRPLLEPLVTPETLKLHPIRELNELCQKRSYKIVLEDVSRKDGVTNYRMELEADGVIHEYEYTGPALRDTAKKIACKEILNSLKEEEL*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
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