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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT4G21710 | AT | Annotation by Michelle Graham. TAIR10: DNA-directed RNA polymerase family protein | chr4:11535684-11542200 REVERSE LENGTH=1188 | SoyBase | E_val: 0 | ISS |
| GO:0000394 | GO-bp | Annotation by Michelle Graham. GO Biological Process: RNA splicing, via endonucleolytic cleavage and ligation | SoyBase | N/A | ISS |
| GO:0000956 | GO-bp | Annotation by Michelle Graham. GO Biological Process: nuclear-transcribed mRNA catabolic process | SoyBase | N/A | ISS |
| GO:0006351 | GO-bp | Annotation by Michelle Graham. GO Biological Process: transcription, DNA-dependent | SoyBase | N/A | ISS |
| GO:0006366 | GO-bp | Annotation by Michelle Graham. GO Biological Process: transcription from RNA polymerase II promoter | SoyBase | N/A | ISS |
| GO:0009793 | GO-bp | Annotation by Michelle Graham. GO Biological Process: embryo development ending in seed dormancy | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0005665 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: DNA-directed RNA polymerase II, core complex | SoyBase | N/A | ISS |
| GO:0005829 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: cytosol | SoyBase | N/A | ISS |
| GO:0009506 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: plasmodesma | SoyBase | N/A | ISS |
| GO:0016591 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: DNA-directed RNA polymerase II, holoenzyme | SoyBase | N/A | ISS |
| GO:0003677 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: DNA binding | SoyBase | N/A | ISS |
| GO:0003899 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: DNA-directed RNA polymerase activity | SoyBase | N/A | ISS |
| GO:0032549 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: ribonucleoside binding | SoyBase | N/A | ISS |
| KOG0214 | KOG | RNA polymerase II, second largest subunit | JGI | ISS | |
| PTHR20856 | Panther | DNA-DIRECTED RNA POLYMERASE I SUBUNIT 2 | JGI | ISS | |
| PTHR20856:SF7 | Panther | DNA-DIRECTED RNA POLYMERASE II SUBUNIT 2 | JGI | ISS | |
| PF00562 | PFAM | RNA polymerase Rpb2, domain 6 | JGI | ISS | |
| PF04560 | PFAM | RNA polymerase Rpb2, domain 7 | JGI | ISS | |
| PF04561 | PFAM | RNA polymerase Rpb2, domain 2 | JGI | ISS | |
| PF04563 | PFAM | RNA polymerase beta subunit | JGI | ISS | |
| PF04565 | PFAM | RNA polymerase Rpb2, domain 3 | JGI | ISS | |
| PF04566 | PFAM | RNA polymerase Rpb2, domain 4 | JGI | ISS | |
| PF04567 | PFAM | RNA polymerase Rpb2, domain 5 | JGI | ISS | |
| UniRef100_I1MHA4 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: DNA-directed RNA polymerase n=74 Tax=core eudicotyledons RepID=I1MHA4_SOYBN | SoyBase | E_val: 0 | ISS |
| UniRef100_I1MHA4 | UniRef | Annotation by Michelle Graham. Best UniRef hit: DNA-directed RNA polymerase n=74 Tax=core eudicotyledons RepID=I1MHA4_SOYBN | SoyBase | E_val: 0 | ISS |
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Glyma15g18790 not represented in the dataset |
Glyma15g18790 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 |
|---|---|---|
| Glyma09g07570 | 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.15g172100 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma15g18790.1 sequence type=CDS gene model=Glyma15g18790 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGATTTGGAAGAGGAGCAGGAGTACGACGAGCAAATGATGGAGGAAGACGACGACGAGGAAGAGATCACACAGGAAGACGCGTGGGCCGTTATCTCCGCGTACTTCGAAGAGAAGGGCCTCGTTCGCCAGCAACTCGATTCCTTCGACGAGTTCATCCAAAACACCATGCAGGAAATCGTCGACGAGTCCGCGGACATCGAAATTCGACCCGAGTCGCAGCACAATCCCGGTCACCAATCCGATTTCGCCGAAACCATTTACAAAATCAGCTTCGGTCAGATTTACTTGAGTAAGCCTATGATGACGGAATCTGATGGTGAAACCGCCACGTTGTTCCCCAAGGCTGCTAGGTTAAGGAACCTTACTTATTCTGCTCCTTTGTATGTTGATGTCTCCAAAAGGGTCGTCAAGAAGGGGCACGACGGGGAAGAGGTCACCGAGACTCAGGATTTAACCAAAGTTTTCATTGGCAAGGTTCCTATAATGCTTCGGTCTAGTTATTGCACGTTGTACCAGAATTCGGAGAAGGATTTGACTGAGCTTGGGGAGTGTCCTTATGATCAAGGCGGGTATTTCATTATTAATGGGAGTGAGAAGGTTCTGATTGCTCAGGAGAAGATGAGCACCAACCATGTCTATGTGTTCAAGAAGAGGCAGCCCAACAAGTACGCCTATGTGGCCGAAGTTCGGTCCATGGCAGAGTCACAGAACAGACCTCCTAGTACTATGTTCGTGCGCATGCTCTCTCGGACTAGCTCCAAAGGGGGTTCTTCAGGACAATATATACGTGCCACTCTTCCTTACATTCGAACTGAAATTCCCATCATTATTGTGTTTCGAGCATTGGGTTTTGTTGCCGATAAAGATATTCTAGAGCATATATGTTATGACTTCTCAGATACTCTAATGATGGAGCTGCTACGTCCTTCCCTGGAAGAAGCGTTTGTAATTCAAAATCAACAGGTTGCACTTGACTACATTGGGAAAAGAGGAGCAACTGTAGGTGTAACCAAGGAAAAGAGAATTAAGTATGCTAAGGAGATCCTTCAAAAGGAGATGCTCCCTCATGTTGGCGTTGGAGAATATTGTGAGACCAAGAAAGCCTACTATTTTGGATATATCATTCATCGGCTACTGCTGTGTGCACTTGGGCGGAGGGCTGAGGATGATAGGGATCATTATGGAAACAAGAGGCTGGATCTGGCTGGTCCTTTACTTGGTGGTCTTTTTAGAATGCTATTCAGAAAGCTAACGAGAGATGTCAGGGGATATGTACAGAAGTGTGTTGATAATGGGAAAGATGTTAATCTGCAATTTGCTATCAAAGCAAAAACCATCACAAGTGGACTTAAATACTCACTTGCCACTGGTAATTGGGGGCAAGCAAATGCTGCAGGGACTAGAGCTGGTGTGTCACAGGTGCTGAATCGTTTAACTTATGCATCCACTTTATCTCACTTGCGAAGATTGAATTCCCCAATAGGTCGTGAAGGGAAGTTGGCCAAACCAAGACAGCTGCATAATTCACAATGGGGAATGATGTGTCCAGCAGAAACACCTGAAGGACAAGCCTGTGGACTGGTGAAGAATCTGGCATTGATGGTCTACATAACAGTTGGTTCAGCAGCATATCCTATTCTGGAGTTTTTGGAAGAATGGGGCACAGAAAATTTCGAGGAAATCTCTCCTGCAGTAATTCCCCAAGCCACAAAAATTTTTGTAAATGGTTGCTGGATGGGGATCCATCGTGACCCTGATATGTTGGTGAGAACATTGAGAAAGCTGAGACGTCGGGTTGATGTGAACACTGAAGTTGGGGTTGTCAGAGATATCATTCTTAAAGAATTGCGTATATATACAGATTATGGTCGTTGCAGTCGTCCTTTATTCATCGTGGATAAGCAAAGGCTTCTCATAAAGAAGAAGGATATTCATGCCTTACAACAGAGGGAATCCCCCGAAGATGGCGGATGGCATGATCTAGTGTCCAAGGGCTTTATAGAATATATTGACACGGAAGAAGAAGAGACTACAATGATTTCCATGACCATTAATGATCTTGTACAAGCTAGGATCAATCCAGAAGATGCGTATGCTGGTACTTACACTCATTGTGAAATCCACCCATCACTGATTTTGGGTGTATGTGCTTCCATCATACCATTTCCTGATCACAATCAGTCCCCACGTAATACTTATCAGTCCGCAATGGGAAAGCAAGCAATGGGAATATATGTTACCAACTACCAGTTTCGAATGGATACCTTGGCCTATGTTTTATATTATCCACAAAAGCCACTGGTCACTACAAGAGCCATGGAGCATCTTCATTTCCGTCAACTCCCAGCTGGAATTAATGCCATTGTAGCCATTGCCTGTTACTCTGGTTATAATCAAGAAGATTCCGTCATCATGAACCAATCGTCAATAGACCGTGGATTCTTTCGGTCTCTGTTTTTCCGTTCATATAGAGATGAAGAGAAGAAGATGGGAACCCTGGTCAAAGAAGATTTTGGCCGTCCTGATAGAGCTAACACCATGGGAATGAGACATGGTTCTTATGATAAGCTGGATGATGATGGTCTTGCCCCACCAGGCACACGAGTATCTGGTGAGGATGTTATCATTGGAAAGACCACCCCAATATCTCAGGAGGAGGCACAGGGACAAGCTTTACGTTACACAAGGCGTGATCACAGCATAAGCTTACGTCACAGTGAAACTGGAATTGTTGATCAAGTTTTGCTGACCACAAATGCTGATGGATTGAGATTTGTGAAAGTAAGAGTGAGATCTGTTCGTATACCACAGATTGGTGATAAATTCAGTAGTAGACATGGTCAGAAGGGGACAGTTGGTATGACTTATACACAAGAAGACATGCCCTGGACTGTGGAAGGCATTACCCCTGATATTATTGTCAATCCACATGCTATTCCTTCTCGAATGACAATTGGTCAGCTTATTGAGTGTATCATGGGGAAGGTGGCAGCCCACATGGGAAAAGAAGGAGATGCAACTCCTTTTACAGATGTTACTGTGGACAATATCAGTAAAGCTCTACACAAATGTGGGTACCAAATGCGTGGTTTTGAGACTATGTACAATGGTCATACAGGGAGACGTCTAAGTGCAATGATTTTCCTTGGCCCTACATATTACCAAAGACTGAAGCATATGGTTGACGACAAGATCCATTCTCGTGGAAGGGGTCCTGTGCAGATCCTCACTAGGCAACCTGCTGAGGGACGCTCACGAGATGGAGGTCTCCGATTTGGAGAGATGGAACGAGATTGCATGATAGCTCATGGAGCTGCTCACTTCTTAAAGGAAAGGTTGTTTGATCAAAGTGATGCATACAGGGTCCATGTATGTGAGCGTTGTGGGTTGATAGCTATTGCAAATCTCAAGAAGAATTCTTTTGAGTGCAGGGGATGCAAGAACAAAACTGACATTGTTCAGGTTTACATTCCTTATGCTTGTAAGCTCCTCTTCCAAGAGTTAATGGCTATGGCAATAGCTCCAAGAATGCTTACAAAGGAGGTCAAAACTACAAACCAAAAGAAGAAGGGAGCCTGA
>Glyma15g18790.1 sequence type=predicted peptide gene model=Glyma15g18790 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MDLEEEQEYDEQMMEEDDDEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGHQSDFAETIYKISFGQIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVSKRVVKKGHDGEEVTETQDLTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSSKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFSDTLMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTKEKRIKYAKEILQKEMLPHVGVGEYCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRGYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWMGIHRDPDMLVRTLRKLRRRVDVNTEVGVVRDIILKELRIYTDYGRCSRPLFIVDKQRLLIKKKDIHALQQRESPEDGGWHDLVSKGFIEYIDTEEEETTMISMTINDLVQARINPEDAYAGTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRANTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQEEAQGQALRYTRRDHSISLRHSETGIVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLSAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGAAHFLKERLFDQSDAYRVHVCERCGLIAIANLKKNSFECRGCKNKTDIVQVYIPYACKLLFQELMAMAIAPRMLTKEVKTTNQKKKGA*
| 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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