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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT2G27100 | AT | Annotation by Michelle Graham. TAIR10: C2H2 zinc-finger protein SERRATE (SE) | chr2:11572587-11576357 FORWARD LENGTH=720 | SoyBase | E_val: 0 | ISS |
| GO:0000398 | GO-bp | Annotation by Michelle Graham. GO Biological Process: mRNA splicing, via spliceosome | 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:0007346 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of mitotic cell cycle | SoyBase | N/A | ISS |
| GO:0008380 | GO-bp | Annotation by Michelle Graham. GO Biological Process: RNA splicing | 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:0031053 | GO-bp | Annotation by Michelle Graham. GO Biological Process: primary miRNA processing | 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:0048367 | GO-bp | Annotation by Michelle Graham. GO Biological Process: shoot development | SoyBase | N/A | ISS |
| GO:0048509 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of meristem development | SoyBase | N/A | ISS |
| GO:2000011 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of adaxial/abaxial pattern formation | 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:0005730 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleolus | SoyBase | N/A | ISS |
| GO:0005829 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: cytosol | SoyBase | N/A | ISS |
| GO:0009507 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast | SoyBase | N/A | ISS |
| GO:0010445 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nuclear dicing body | SoyBase | N/A | ISS |
| GO:0016607 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nuclear speck | SoyBase | N/A | ISS |
| GO:0003677 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: DNA binding | SoyBase | N/A | ISS |
| GO:0003700 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding transcription factor activity | SoyBase | N/A | ISS |
| GO:0005515 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: protein binding | SoyBase | N/A | ISS |
| GO:0008270 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: zinc ion binding | SoyBase | N/A | ISS |
| KOG2295 | KOG | C2H2 Zn-finger protein | JGI | ISS | |
| PTHR13165 | Panther | ARSENITE-RESISTANCE PROTEIN 2 | JGI | ISS | |
| PF04959 | PFAM | Arsenite-resistance protein 2 | JGI | ISS | |
| PF12066 | PFAM | Domain of unknown function (DUF3546) | JGI | ISS | |
| UniRef100_G7L6Z3 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Serrate RNA effector molecule n=1 Tax=Medicago truncatula RepID=G7L6Z3_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_I1JVZ4 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=2 Tax=Glycine max RepID=I1JVZ4_SOYBN | SoyBase | E_val: 0 | ISS |
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Glyma04g15990 not represented in the dataset |
Glyma04g15990 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 |
|---|---|---|
| Glyma06g47265 | 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.04g128800 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma04g15990.2 sequence type=CDS gene model=Glyma04g15990 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGCCGAAGTGATCAACAATATGCCCCCCGAATCCCTAGACCACGACCAATCTCCCTCCGCTTCCGCTCCTCCTCCGCCGGCCGCCTCTTCCTCCGCCGCCGACGATCTCCCTCCGCCGCCTCTCCCTCTTCCGCCGCGCCGCCGGGACCGTAGGGACGACCGCGATTTCGACCGCCACCCCAACCGCAGCCGCGATTACTACGACCGCGACAGGGACTTCAAGCGCCGCCGCAGCCCTAGCCCCGGTTACCGTGACCGCCGCTACTCACCCCCGCCGCCGTCGCGCCGGTCGCCTCCGCCGTACAAGCGATCCCGGAGAGGCAGCCCCCGCGGCGGGGCCTATGTACCTGATGATAGATTTGGCTATGATTATTCTGGTGGCTATGAACGGGGAGCAGGTGGAAGGACTGGTTTTGCAGATGAAAAGTCTTATGGCAGGCTTGCTCATCGATCTGCTGGGGGATATCATAATGGGATTTCTGATGTGGATAATAGTCGCGGTTATGCAGATTTGCCAAGTGGAGGTGCACAAAGAGAGGGGTTGATGTCCTATAAACAATTCATTCAGGAGCTGGAAGATGATGTGCTGCCAGCTGAAGCTGAGCGTAGGTATCAAGAGTACAAATCAGAGTATATTTCTACACAAAAGCGGGCTTATTTTAATGCTCATAAGGATGAAGAGTGGTTAAAAGATAAATATCACCCAACAAATTTACTTACAGTAATTGAGAGGAGGAATGAAAATGCTCGACGGCTTGCAAAGGATTTTTTGCTTGATTTGCAAAGTGGAACATTAGACCTAAATCCTGGTTTGAACTCCACTTCATCCGGTAAATCAGGGCAAGCCAGTGAACCTAATTCAGAGGAAGAAACAGATGGTAAACGAAGAAGACATGGTAGGGGACCTAATAAAGATAATGATTTCTCGGCTGCTCCAAAGGCTCACACTATCAGTTCTGAACCTAGACGGATACAAACAGATATTCAACAGGCTCAGGCTGTTGTTCGTAAGCTTGACAGGGAAAAGGGTATTGACGATAATATTTTATGCACCAGTGACCATAATAAAAATGATGACAAGGCTCACAGTGGATCTGTGGGCCCCATAGTAATTGTCCGTGGCTTAACATCTGTTAAGGGATTAGAGGGTGTTGAGCTACTGGACACACTTATTACATATCTTTGGCGGATACATGGTGTTGATTATTATGGTATGATTGAGACTAATGAGGCCAAGGGTTTTAGGTATGTGAGGCCAGAAGGAACAGGGCATGAAGAAACAAGAAAATCTGGTTCTGACTGGGAGAAGAAACTTGATTCATTTTGGCAGGGAAGGTTGAATGGTCAGGATCCATTGGAAGTGATGACTGCCAAGGAGAAGATAGATGCTGCAGCAACTGATGTGTTGGATCCACATGTTAGGAAAATTAGGGATGAGAAATATGGGTGGAAGTATGGTTGTGGAGCTAAGGGCTGCACAAAGCTTTTTCATGCGGCTGAATTTGTGCACAAACATTTGAAGCTAAAACACCCTGAGCTTGTGATGGAACTAACATCAAAATTGCGAGAGGATCTTTATTTTCAAAATTACATGAATGATCCTGATGCTCCTGGTGGAACGCCTGTCATGCAGCAACCTCAGAAGGATAGGCCTCTTAAGCGAAGATTAGGAGGTTTAGAGGGCCGATTGAAGGATGACCGTGGTAACCGGCGAGACCAGGACAGGAGTGACAGAATAAACGGAGATAGGCCTGATGGTTCCCCATCCCATGAAAGGCAAATGGGAAATCATGATGAAGCAATGTATGATGCATATGGAGGGCTCGGTGTACCTCAATTTACCTCAGATATGGCCCCTCCGCCAGTTTTGATGCCTGTACCTGGTGCTGGGCCTTTAGGACCCTTTGTCCCTGCTCCACCAGAAGTTGCAATGCAGATGTTCAGGGAGCAAGGAGGACCTTCGTCATACGATGCCTCAGGAAGGAAGATTCGATCTGGTCCTCATATGGGTGGACCAGCACCCATAATTGCTGTTCCTCCATCCTTTAGACCTGATCCTCGACAGATGCGAAGTTATCAAGATCTGGATGCCCCAGAAGACGAAGTCACTGTGATAGACTATCGGAGCTTGTAG
>Glyma04g15990.2 sequence type=predicted peptide gene model=Glyma04g15990 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MAEVINNMPPESLDHDQSPSASAPPPPAASSSAADDLPPPPLPLPPRRRDRRDDRDFDRHPNRSRDYYDRDRDFKRRRSPSPGYRDRRYSPPPPSRRSPPPYKRSRRGSPRGGAYVPDDRFGYDYSGGYERGAGGRTGFADEKSYGRLAHRSAGGYHNGISDVDNSRGYADLPSGGAQREGLMSYKQFIQELEDDVLPAEAERRYQEYKSEYISTQKRAYFNAHKDEEWLKDKYHPTNLLTVIERRNENARRLAKDFLLDLQSGTLDLNPGLNSTSSGKSGQASEPNSEEETDGKRRRHGRGPNKDNDFSAAPKAHTISSEPRRIQTDIQQAQAVVRKLDREKGIDDNILCTSDHNKNDDKAHSGSVGPIVIVRGLTSVKGLEGVELLDTLITYLWRIHGVDYYGMIETNEAKGFRYVRPEGTGHEETRKSGSDWEKKLDSFWQGRLNGQDPLEVMTAKEKIDAAATDVLDPHVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVMELTSKLREDLYFQNYMNDPDAPGGTPVMQQPQKDRPLKRRLGGLEGRLKDDRGNRRDQDRSDRINGDRPDGSPSHERQMGNHDEAMYDAYGGLGVPQFTSDMAPPPVLMPVPGAGPLGPFVPAPPEVAMQMFREQGGPSSYDASGRKIRSGPHMGGPAPIIAVPPSFRPDPRQMRSYQDLDAPEDEVTVIDYRSL*
| 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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