SoyBase
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Integrating Genetics and Genomics to Advance Soybean Research
SoyBase
SoyBase transitions to NEW site on 10/1/2024
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A previous version of this gene model can be found here:
| Database ID | Annotation Type | Annotation Description | Annotation Source | Match Score | Evidence Code |
|---|---|---|---|---|---|
| AT4G12610.2 | AT | transcription activators;DNA binding;RNA polymerase II transcription factors;catalytics;transcription initiation factors | JGI | N/A | IEA |
| GO:0006367 | GO-bp | transcription initiation from RNA polymerase II promoter | EnsemblGenomes | N/A | IEA |
| GO:0032968 | GO-bp | positive regulation of transcription elongation from RNA polymerase II promoter | EnsemblGenomes | N/A | IEA |
| GO:0045893 | GO-bp | positive regulation of transcription, DNA-templated | JGI | N/A | IEA |
| GO:0005634 | GO-cc | nucleus | EnsemblGenomes | N/A | IEA |
| GO:0005634 | GO-cc | nucleus | JGI | N/A | IEA |
| GO:0003677 | GO-mf | DNA binding | EnsemblGenomes | N/A | IEA |
| GO:0003677 | GO-mf | DNA binding | JGI | N/A | IEA |
| KOG2393 | KOG | Transcription initiation factor IIF, large subunit (RAP74) | JGI | N/A | IEA |
| PTHR13011 | Panther | TFIIF-ALPHA | JGI | N/A | IEA |
| PF05793 | PFAM | Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) | JGI | N/A | IEA |
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Glyma.09g009900 not represented in the dataset |
Glyma.09g009900 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 |
Gene families from Phytozome are displayed using the PhyloTree viewer developed by LIS.
Gene information in GlycineMine developed by LIS.
Gene families from PhyloGenes.
| Paralog | Evidence | Comments |
|---|---|---|
| Glyma.15g114200 | 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 0.35. |
| Corresponding Name | Annotation Version | Evidence | Comments |
|---|---|---|---|
| Glyma09g01260 | Wm82.a1.v1.1 | IGC | As supplied by JGI |
>Glyma.09g009900.1 sequence-type=CDS polypeptide=Glyma.09g009900.1.p locus=Glyma.09g009900 ID=Glyma.09g009900.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 ATGTCGACCGACCTGCAATTGAAGTCGAGTTGTAGCGGATGCGGATCAACGACGGATCTCTACGGAAGCAATTGCAAGCACATGACTCTGTGCTTGGGCTGCGGCAAAACCATGGCGGCCAAACGCGCCAAATGCGTTGATTGTGGCGCCACCCTCACTCGTTTGATTCGAGAATATAATGTTCGTGCAAGTTCCCCCAATGATAAGAATTACTTCATTGGAAGGTTCATAAACGGTTTGCCTGATTTTTCGAAGAAGAAAAGTGCTGAGAACAAGTGGTCTCTGCAGAAGGATGGACTACACGGACGCCAAATTACTGATACTTTGCGGGAGAAGTACAAGAACAAGCCTTGGCTCTTGGAGGATGAAACAGGTCAGTCCCAGTTCCAGGGTCATCTAGAAGGTTCACAATCGGCTACATATTACCTGCTAATGAAGGAAAGGAAGGAGTTTGTTGCCATTCCTGCTGGTTCTTGGTACAACTTTAACAAGGTTGCTCAATATAAGCAATTGACATTGGAGGAAGCAGAAGAGAAGATGAAGAATAGAAAGAAAACTGCAGATGGATATCAAAGATGGATGATGAAAGCAGCAAATAATGGCCCAGCTGCATTTGGTGAACATGGGAAATTTGATGACAACGAAAGCAACACGGGTGGAGGGAGAAGCCATAAAAAAACTGATGAGGATGATGAAGGTCATGTGTCTGATAAGGGAGAGGAGGATGAAGAGGAGGAATCAGAAAGGAAGAGTAGACTTGGACTTAATAAAAGAGCTGGTGAAGATGATGAAGAAGGTCCAAGGGGAGGGGACCATGATCTAGATGACGACGATGTTGAGAAGGGCGATGATTGGGAGCATGAAGAGATTTTCACTGATGATGATGAAGCTGTTGGCAATGATCCTGAGGAAAGGGAGGATTTGGCTCCTGAAGTTCCTGCTCCTCCTGAAATCAAGCAGGATGAGGAGGAGGAAGATGAAGATAATGAAGAGGGAGAAGGTCTGAGTAAATCTGGGAAAGAGCTGAAGAAGCTGCTTGGAAAAGCTAGTGGTCTGAATGAATCTGATGCAGAGGATGATGATGACGATGACGATGATGTGGATGATGATGTTGGTGTCCCTCCTGTCATTGCTACAAAGCAAAAGGATGCCCTTAAGGAAGAACCCATTGACAATAGCCCTTCAAAGCCAACAGCAACAGGACCTGCTCGTGGAACACCTTCTTCAAAGTCTTCAAAGGGGAAGAGAAAATTAAATGAAGAAACAAAGCCATCTAATACCGCAACTCCAAAGAAGGAACCAAAATTGTCCGCCAAAGATGTAAATGGATCTGCATCTAAAAGTAGTGCACCTCCAAAAGGTACACCTCCATTGTCATCAAAGGGCGGGTCTTCCACAACAACAACAGCTTCTGGACCGGTGAGTGAGGAAGAAATTAGGGCTGTTTTAAGGCAGAAGACTCCGGTGACCACTCAGGATCTTGTAGCTAAATTTAAGGCAAGACTAAGATGTTCAGAGGATAAGCAAGCATTTGCTGAGATCCTTAAGCGAATCTCTAAGATACAGAAGACTACAACTGGAGCCAGTTATGTTATCCTGAGAGATAAGTGA
>Glyma.09g009900.1.p sequence-type=predicted peptide transcript=Glyma.09g009900.1 locus=Glyma.09g009900 ID=Glyma.09g009900.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 MSTDLQLKSSCSGCGSTTDLYGSNCKHMTLCLGCGKTMAAKRAKCVDCGATLTRLIREYNVRASSPNDKNYFIGRFINGLPDFSKKKSAENKWSLQKDGLHGRQITDTLREKYKNKPWLLEDETGQSQFQGHLEGSQSATYYLLMKERKEFVAIPAGSWYNFNKVAQYKQLTLEEAEEKMKNRKKTADGYQRWMMKAANNGPAAFGEHGKFDDNESNTGGGRSHKKTDEDDEGHVSDKGEEDEEEESERKSRLGLNKRAGEDDEEGPRGGDHDLDDDDVEKGDDWEHEEIFTDDDEAVGNDPEEREDLAPEVPAPPEIKQDEEEEDEDNEEGEGLSKSGKELKKLLGKASGLNESDAEDDDDDDDDVDDDVGVPPVIATKQKDALKEEPIDNSPSKPTATGPARGTPSSKSSKGKRKLNEETKPSNTATPKKEPKLSAKDVNGSASKSSAPPKGTPPLSSKGGSSTTTTASGPVSEEEIRAVLRQKTPVTTQDLVAKFKARLRCSEDKQAFAEILKRISKIQKTTTGASYVILRDK*
| 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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