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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT3G23780 | AT | Annotation by Michelle Graham. TAIR10: nuclear RNA polymerase D2A | chr3:8567971-8573819 REVERSE LENGTH=1172 | SoyBase | E_val: 0 | ISS |
| GO:0006306 | GO-bp | Annotation by Michelle Graham. GO Biological Process: DNA methylation | SoyBase | N/A | ISS |
| GO:0006351 | GO-bp | Annotation by Michelle Graham. GO Biological Process: transcription, DNA-dependent | 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:0035194 | GO-bp | Annotation by Michelle Graham. GO Biological Process: posttranscriptional gene silencing by RNA | SoyBase | N/A | ISS |
| GO:0050776 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of immune response | SoyBase | N/A | ISS |
| GO:0050832 | GO-bp | Annotation by Michelle Graham. GO Biological Process: defense response to fungus | SoyBase | N/A | ISS |
| GO:0000418 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: DNA-directed RNA polymerase IV complex | SoyBase | N/A | ISS |
| GO:0000419 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: DNA-directed RNA polymerase V complex | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0005720 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nuclear heterochromatin | SoyBase | N/A | ISS |
| GO:0030880 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: RNA polymerase complex | 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:0005515 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: protein binding | 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:SF6 | Panther | DNA-DIRECTED RNA POLYMERASE 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_I1K8M4 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: DNA-directed RNA polymerase n=1 Tax=Glycine max RepID=I1K8M4_SOYBN | SoyBase | E_val: 0 | ISS |
| UniRef100_UPI0002339EA7 | UniRef | Annotation by Michelle Graham. Best UniRef hit: UPI0002339EA7 related cluster n=1 Tax=unknown RepID=UPI0002339EA7 | SoyBase | E_val: 0 | ISS |
|
Glyma06g06480 not represented in the dataset |
Glyma06g06480 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 |
|---|---|---|
| Glyma04g06440 | 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.06g061600 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma06g06480.1 sequence type=CDS gene model=Glyma06g06480 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGGTCACGTAGGTTCCAGCAAGGACGGCACCGAGGCTGGGCCTTCCGCCGCCGCGATGGGCATCGACGACGACGAAGACATCGACCTCGGCGACGTCGATCTCGACCCGACCAACGCCGAAATCCTCGAAGAGCTCGGTGAAGACATTGTGAAATACTGGTGCAAGAAAGCGTCGATGCTCTTCTTCAACGAGTACGGTCTGATCAGCCACCAGATCAACTCCTTTAACCACTTCATCCACACAGGCCTCCAAAAAACCTTCGAATCCTTCGGAGACCTAGTCGTAACGCCCGGGTTCGACCCTTCCAAGAAGGGAGAAAACGAACACTTCCGTTACGCCTCCGTTAAGTTCGGCAATGTGAAGCTCGATAAACCTATGTTCTGGGGCGGTGAAGGGAACGCGCAGGAGTTTAAGATGCTTCCCAGACACGCGAGAATCCAGAGGATGACCTACGCTTCCAAAGTCAAAATCCAAGTTAAAGTTCAGGTGTATGTTCCGAAGAAGGTACGGAGTGATAAGTTCAAGACTGGGAAAGCGGAATTCCTTGACAGGGAGGTTATGAAGGAAGACGAGAGGGAAATCATCATTGGGAGATTGCCAGTCATGGTCAAGTCTGATTTATGCTGGATGAAAGAGGCGGAGAAGGAGGATGATGAATTTGACCATGGAGGTTATTTTATCGTTAAGGGTGCAGAGAAGACTTTTATTGCACAGGAGCAACTGTATTTAAAGAGGCTATGGGTTATGAATAGTCCAGGTTGGATGATTGCCTACAAGTCACAGATGAAGAGAAACAGGATGGTTATTAAACTGGTAGGAAATTCCAGGGGTGAAGAAGTGGAGAATGGGGACATGTCTCTTGCTGTATATTTTTTGTCTGTTGAGGTTCCTGTGTGGGTACTGTTTTTCGCTCTCGGTGTCTCATCTGACAAAGAGATTGTAGATCTCATTGGTTGTGGCAATGATGATGTCAGAATTCAGAATATTCTCTTTGCATCTGTTCGGGATGCTGATGAGAAATGTGGAGCATTTCGAAGAGGTAGGCATGCAGTTCAATATTTAGAAAAATGTGTAAAAAGTGTTCAATTTCCACCTTCGGAGTCTATGCAGGAGTGCCTTGAAATGTATGTCTTCCCTGGAATTAGTGGTTTGAATAGAAAGGCGCGCTTCCTTGCATATATGGTGAAAGGTCTCTTGCTGGCTTATACTGGCCGCCGAAAATGCGACAACAGGGATGATTTTCGAAATAAGAGGCTTGAATTGGCCAGTGAGCTTCTTGACCGTGAGTTGAAAGTGCACATTGCACATGCCCGGAAGCGAATGGCAAAAGCTTTGCAGAGAGACCTTTATGGAGATAGGGATGTACGCCCAATTGAGCATTATCTCGACGCGTCCATAATTACAAATGGCTTGCAAAGGGCATTTTCAACAGGAGCGTGGTCTCATCCATACAAGAGGATGGAAAGGATCTCAGGTGTGGTTGCAAATGTTGGGCGCACTAATCCCTTACAAACCATGGCTGAGTTAAGAAGAGCGAGGCAGCAGGTCCAGTACACAGGAAAAGTTGGGGATGCTAGATATCCGCATCCTTCTCACTGGGGCAAGGTTTGTTTCCTCTCTACCCCAGATGGTGAAAATTGTGGACTAGTAAAAAATTTGGCTGTCACAGGATTAGTAAGTACTGATGTATCGGCAGTATCTGAATATATACTGCCTAAATTGCTGGATTGTGGAATGGAAGAACTTGTTGATGATACTTCCACTCATCTTGGGAACAAGGACAAAGTTCTCCTAAATGGCGATTGGGTTGGAGTGTGTCCTGATTCCAGTTCATTTGTGGCAGAGCTACGAAGCAGAAGACGTAGAAATGAACTGCCTCATCAGGTGGAAATCAAGAGAGACCAATCTCAACATGAAGTGCGCATATACTCGGATGCAGGAAGGATTCTACGTCCTCTTTTGGTGGTTGGTAATCTACTCAAGATTAAAGGATTTAAATCAGACTGTAACTCTTTCCAGTCTCTATTGGATAAAGGTGTGATTGAGCTGATTGGACCGGAAGAAGAGGAAGACTGTTGTACAGCCTGGGGTGTTGAGTATTTATTTGGAAAAGAAGGAAAACGATCTGTAAAGTACACTCATTGTGAACTTGATATGTCATTCTTATTGGGTTTAAGCTGTTCACTTGTACCATTTGCTAATCATGACCATGCGAGGAGGGTACTCTACCAGTCTCAGAAGCACTCCTCACAGGCAATTGGCTTTTCTACAACAAACCCGAACATTAGAGTTGATACTTTGTCTCACCAGTTACACTATCCCCAAAAGCCCCTTTTTCGAACAATGGCTTCAGATTGTCTTGGAAAACCAGACAATTCACTTGGTCAAAATAAAATAAGTAAAATACCTCCAAAGGCAGAATTCTATAATGGGCAGAATGCAATTGTGGCTGTTAATGTACATCTGGGATACAATCAAGAGGATTCCCTTGTGATGAACCGTGCTTCACTGCAGCGTGGTATGTTCAGGTCTGAGCACATAAGGAGTTACAAATCTGAAATCGATAATAAGGAATCTTCAGATAAGAAGCGAAAACCTGAAGACATTGTAAATTTTGCAAAGCTACAAAGTAAAATTGGCCGAGTTGATAGCCTTGATGATGATGGCTTTCCATATGTTGGTGCTAATTTGCAGAGCGGTGATATTATTATTGGGAAGGGTGCTGAATCTGGTGCAGACAATAGTGTAAAGTTAAAGCACACTGAAAGGGGTTATGTGCAAAAGGTTGTGCTGTCTTCAAATGACGAAGGGAAAAATTTTGCTGTGGTTTCATTAAGACAGGTTCGAAGTCCCGTTCTTGGAGACAAGTTCTCCAGTATGCATGGACAAAAGGGAGTTTTGGGATTTCTGGAGTCTCAGGAAAATTTTCCTTTCACAAGACAAGGCATTGTTCCTGATATTGTCATAAATCCACATGCATTTCCCTCACGACAAACTCCTGGGCAACTCCTAGAGGCTGCTTTAGGAAAGGGGATTGCTTGTGGTGGCATACTGAGACAAGCTACGCCTTTCTCCACACCTTCTGTTGATGCCATTACTGAACAGCTTCACAGAGCTGGGTTTTCAAGATGGGGAAATGAGAGGGTATACAATGGAAGGACTGGTGAGATGGTTCGATCACTCATTTTTATGGGACCAACATTTTACCAACGTCTGCACCATATGTCTGAAGACAAAGTGAAATTCCGGAACACTGGTCCAGTTCACCCGTTGACCCGACAGCCTGTAGCTGACAGAAAACGATTTGGAGGTATCAAGTTCGGTGAGATGGAGCGTGATTGCCTAATAGCTCATGGTGCATCAGCCAACCTGTATGAACGCCTGTTTACACTCAGTGACTCCTCTCAGATTCATATCTGCAGCAAATGCAAAAATGTTGCAAATGTGATCTTGCGGCCTGTCTCTGGTGGCCGGAAAATACGAGGACCTTATTGCCGCCACTGTGAATCTGCGGATGACATTGTGGTGGCTCATGTCCCGTATGGAGCAAAGTTATTATGCCAGGAGCTCTTTAGCATGGGCATAAATCTTAAATTTGAAACCCAACTTTGCTAG
>Glyma06g06480.1 sequence type=predicted peptide gene model=Glyma06g06480 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MGHVGSSKDGTEAGPSAAAMGIDDDEDIDLGDVDLDPTNAEILEELGEDIVKYWCKKASMLFFNEYGLISHQINSFNHFIHTGLQKTFESFGDLVVTPGFDPSKKGENEHFRYASVKFGNVKLDKPMFWGGEGNAQEFKMLPRHARIQRMTYASKVKIQVKVQVYVPKKVRSDKFKTGKAEFLDREVMKEDEREIIIGRLPVMVKSDLCWMKEAEKEDDEFDHGGYFIVKGAEKTFIAQEQLYLKRLWVMNSPGWMIAYKSQMKRNRMVIKLVGNSRGEEVENGDMSLAVYFLSVEVPVWVLFFALGVSSDKEIVDLIGCGNDDVRIQNILFASVRDADEKCGAFRRGRHAVQYLEKCVKSVQFPPSESMQECLEMYVFPGISGLNRKARFLAYMVKGLLLAYTGRRKCDNRDDFRNKRLELASELLDRELKVHIAHARKRMAKALQRDLYGDRDVRPIEHYLDASIITNGLQRAFSTGAWSHPYKRMERISGVVANVGRTNPLQTMAELRRARQQVQYTGKVGDARYPHPSHWGKVCFLSTPDGENCGLVKNLAVTGLVSTDVSAVSEYILPKLLDCGMEELVDDTSTHLGNKDKVLLNGDWVGVCPDSSSFVAELRSRRRRNELPHQVEIKRDQSQHEVRIYSDAGRILRPLLVVGNLLKIKGFKSDCNSFQSLLDKGVIELIGPEEEEDCCTAWGVEYLFGKEGKRSVKYTHCELDMSFLLGLSCSLVPFANHDHARRVLYQSQKHSSQAIGFSTTNPNIRVDTLSHQLHYPQKPLFRTMASDCLGKPDNSLGQNKISKIPPKAEFYNGQNAIVAVNVHLGYNQEDSLVMNRASLQRGMFRSEHIRSYKSEIDNKESSDKKRKPEDIVNFAKLQSKIGRVDSLDDDGFPYVGANLQSGDIIIGKGAESGADNSVKLKHTERGYVQKVVLSSNDEGKNFAVVSLRQVRSPVLGDKFSSMHGQKGVLGFLESQENFPFTRQGIVPDIVINPHAFPSRQTPGQLLEAALGKGIACGGILRQATPFSTPSVDAITEQLHRAGFSRWGNERVYNGRTGEMVRSLIFMGPTFYQRLHHMSEDKVKFRNTGPVHPLTRQPVADRKRFGGIKFGEMERDCLIAHGASANLYERLFTLSDSSQIHICSKCKNVANVILRPVSGGRKIRGPYCRHCESADDIVVAHVPYGAKLLCQELFSMGINLKFETQLC*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
|
|
|
