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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT4G08350 | AT | Annotation by Michelle Graham. TAIR10: global transcription factor group A2 | chr4:5286351-5292072 FORWARD LENGTH=1041 | SoyBase | E_val: 0 | ISS |
| GO:0006357 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of transcription from RNA polymerase II promoter | SoyBase | N/A | ISS |
| GO:0006412 | GO-bp | Annotation by Michelle Graham. GO Biological Process: translation | SoyBase | N/A | ISS |
| GO:0032784 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of DNA-dependent transcription, elongation | SoyBase | N/A | ISS |
| GO:0032968 | GO-bp | Annotation by Michelle Graham. GO Biological Process: positive regulation of transcription elongation from RNA polymerase II promoter | 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:0005840 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: ribosome | 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:0003735 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: structural constituent of ribosome | SoyBase | N/A | ISS |
| KOG1999 | KOG | RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 | JGI | ISS | |
| PTHR11125 | Panther | SUPPRESSOR OF TY 5 | JGI | ISS | |
| PF03439 | PFAM | Early transcription elongation factor of RNA pol II, NGN section | JGI | ISS | |
| PF11942 | PFAM | Spt5 transcription elongation factor, acidic N-terminal | JGI | ISS | |
| UniRef100_G7J5M4 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Global transcription factor group n=1 Tax=Medicago truncatula RepID=G7J5M4_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_UPI000233A09D | UniRef | Annotation by Michelle Graham. Best UniRef hit: UPI000233A09D related cluster n=1 Tax=unknown RepID=UPI000233A09D | SoyBase | E_val: 0 | ISS |
|
Glyma04g42000 not represented in the dataset |
Glyma04g42000 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 |
|---|---|---|
| Glyma06g12770 | 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.04g240900 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma04g42000.1 sequence type=CDS gene model=Glyma04g42000 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGAGTCGCCGTGGCATGGACGACGACGACGAGGAGGAATACGAGGAGCAGGACGAGCAGGTCGCCGACTTCGACGAGGAGGAGGACGAGCAGGTCGCCGACTTCGTCGAGGAGGAGGAGGAGGGCAGCCACCGAGGACGCGGCGGCGGTGGCGGCAGGAAGAGGGGAAGATCTGGCTTTATCGATGACGACGCCGAGGAGGTCGACGAGGACGAGGAGGAGGAGGACGACGATGACGAGGATTTCGATGGCCGGGGTGGCGGTGGCGGTCGGAGGCGCCAGTACAAGAAGGTTTCCGCCTCTAATTTCTTCGATGAAGAGGCCGTGGTGGATAGTGATGAGGAAGAGGAGGAAGAAGAGGGAGAAGACGACTTCATTGTTGAGGGTGGATCTGATCTGCCGGAAGAAGATGATGGGAGAAGGATGCGTAGTAGCCGTATGCTGCCACATCACCAAGAGGATCATGAAGATCTTGAAGCTATGGCCAGAAGCATCCAGGAACGTTATGGAAGGCGCCTAACAGATTACGATGAAGAAACGACAGATGTGGAGCAACAAGCTCTTTTGCCATCTGTGAGAGATCCAAAGCTGTGGATGGTCAAATGTGCAATTGGTCGTGAGAGAGAAACAGCTGTTTGCCTCATGCAAAAGTACATAGATAAGGGGTCTGAGTTGCAAATAAGATCAGCTATTGCTCTCGATCATCTCAAAAACTATATATACGTGGAAGCAGATAAAGAAGCCCATGTCAGAGAGGCTTGCAAAGGTCTGCGCAATATATTTGGCCAAAAAATAACACTTGTTCCAATCAGAGAAATGACTGATGTTTTGTCTGTTGAAAGTAAAGCTATTGATCTTGCTAGAGATACTTGGGTCAGATTGAAGATCGGGACATATAAAGGGGACCTTGCCAAAGTAGTGGATGTTGATAACGTGCGGCAGAGGGTTACTGTCAAATTAATTCCAAGGATAGACTTACAGGCTCTTGCAAACAAATTGGAAGGTAGAGAAGTTGTGAAAAAGAAGGCTTTTGTTCCTCCTCCTCGTTTTATGAATGTTGATGAAGCAAGGGAACTGCATATCCGTGTGGAGCATAGACGCGATGCCTATGGGGAACGATTTGATGCAATTGGAGGCATGATGTTCAAAGATGGATTCTTATACAAAACTGTATCGATAAAATCCATTAGTGCTCAGAACATCAAACCTACTTTTGATGAGCTTGAAAAATTTCGTAAACCAGGCGAAAGTGGAGATGGTGACGTAGCTAGTCTGTCAACTTTGTTTGCAAACAGGAAGAAAGGCCATTTTATGAAAGGAGATGCTGTTATTGTTGTTAAGGGTGATTTAAAGAACTTGAAGGGGAAGGTGGAGAAAGTTGATGAAGATAATGTTCATATAAGACCAGAAATGGAGGATCTTCCAAAAACTATTGCTGTAAATGAAAAGGAACTTTGTAAATATTTTGAACCTGGAAACCACGTTAAGGTAGTTTCTGGTGCTCAAGAGGGGGCTACAGGCATGGTTGTGAAGGTCGAGCAGCATGTGTTGATCTTAATATCTGATACAACAAAAGAGCATATCCGTGTCTTTGCAGATGATGTTGTAGAAAGTTCAGAAGTAACCACTGGAGTTACAAGAATTGGGGACTATGAACTTCGTGATCTTGTATTGCTAGATAATAATAGCTTTGGTGTGATAATACGTGTTGAAAGTGAGGCATTTCAGGTTCTTAAGGGGATTCCTGACAGACCTGAAGTTGTGCTTGTTAAATTAAGAGAGATCAAATGTAAGATAGATAAGAAAATAAGTGTGCAGGATAGGTTTAAGAATACGGTATCGTCAAAGGATGTTGTGCGGATCATTGATGGTCCCTGCAAAGGAAAGCAAGGTCCTGTGGAGCACATATATAGAGGAATCTTGTTCATCTTTGATCGCCATCATCTTGAACATGCAGGCTTTATATGTGCTAAGGCCCAATCATGTGTAGTTGTGGGAGGTTCACGCTCCAGTGGTGACAGAAATGGGGATGCCTACTCAAGATTTGCCAGTCTTAGAAGTCCAAGTCGTATTCCACCGTCCCCGAGGAGGTTTTCTCGAGGAGGGCCAATGGATTCTGGAGGGAGACATAGGGGTGGAAGGGGCCATGATAGTTTGGCTGGGACAACCGTTAAAGTACGCCAAGGTCCCTATAAAGGTTACCGTGGGCGTGTTATAGATGTTAAAGGCACAACAGTTCGTGTTGAGTTGGAATCCCAAATGAAGGTTGTGACAGTTGACCGGAACCATATATCTGACAATGTGGCTGTAACCCCATATCGTGATACATCTCGCTATGGAATGGGAAGTGAAACACCAATGCATCCTTCTCGAACTCCCTTACATCCATATATGACTCCAATGAGAGATCCTGGAGCAACACCTATTCATGATGGAATGAGAACACCTATGCGTGACCCAGCATGGAATCCTTATACTCCAATGAGTCCTCCAAGGGATAACTGGGAAGATGGAAATCCAGGCTCTTGGGCAGCCAGTCCACAGTATCAGCCTGGAAGCCCTCCTTCACGGCCATATGAAGCCCCAACTCCTGGTGCTGGTTGGGCTAGCACTCCTGGTGGAAATTATAGTGAAGCTGGAACACCGCGGGACAGTTCTGCCTATGCCAATGCTCCAAGCCCATATTTACCATCAACACCTGGTGGACAGCCTATGACACCGAGTTCAGCATCTTATCTTCCTGGCACCCCTGGAGGACAGCCTATGACTCCAGGCACAGGTGGTATGGACATGATGTCTCCAGTTTTAGGTGGGGAAAACGAAGGGCCTTGGTTTATCCCAGATATATTGGTCAACGTACACAGGGCTGGAGAGGAATCTGTTGGAGTTATAAGAGAGGTTCTCCCGGATGGCTCTTACAGGGTAGCTCTTGGATCTAGTGGCAATGGTGAAGCGATTACAGCCCTTCCTAATGAAATGGAGGCTGTGGTACCAAGAAAATCAGACAAAATAAAGATTATGGGTGGGGCATTGCGTGGTGCCACCGGCAAATTGATTGGTGTAGATGGTACTGATGGAATTGTAAAGGTAGATGACACATTGGATGTGAAGATTTTAGACTTAGTTATTTTGGCAAAATTAGCTCAACCATGA
>Glyma04g42000.1 sequence type=predicted peptide gene model=Glyma04g42000 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MSRRGMDDDDEEEYEEQDEQVADFDEEEDEQVADFVEEEEEGSHRGRGGGGGRKRGRSGFIDDDAEEVDEDEEEEDDDDEDFDGRGGGGGRRRQYKKVSASNFFDEEAVVDSDEEEEEEEGEDDFIVEGGSDLPEEDDGRRMRSSRMLPHHQEDHEDLEAMARSIQERYGRRLTDYDEETTDVEQQALLPSVRDPKLWMVKCAIGRERETAVCLMQKYIDKGSELQIRSAIALDHLKNYIYVEADKEAHVREACKGLRNIFGQKITLVPIREMTDVLSVESKAIDLARDTWVRLKIGTYKGDLAKVVDVDNVRQRVTVKLIPRIDLQALANKLEGREVVKKKAFVPPPRFMNVDEARELHIRVEHRRDAYGERFDAIGGMMFKDGFLYKTVSIKSISAQNIKPTFDELEKFRKPGESGDGDVASLSTLFANRKKGHFMKGDAVIVVKGDLKNLKGKVEKVDEDNVHIRPEMEDLPKTIAVNEKELCKYFEPGNHVKVVSGAQEGATGMVVKVEQHVLILISDTTKEHIRVFADDVVESSEVTTGVTRIGDYELRDLVLLDNNSFGVIIRVESEAFQVLKGIPDRPEVVLVKLREIKCKIDKKISVQDRFKNTVSSKDVVRIIDGPCKGKQGPVEHIYRGILFIFDRHHLEHAGFICAKAQSCVVVGGSRSSGDRNGDAYSRFASLRSPSRIPPSPRRFSRGGPMDSGGRHRGGRGHDSLAGTTVKVRQGPYKGYRGRVIDVKGTTVRVELESQMKVVTVDRNHISDNVAVTPYRDTSRYGMGSETPMHPSRTPLHPYMTPMRDPGATPIHDGMRTPMRDPAWNPYTPMSPPRDNWEDGNPGSWAASPQYQPGSPPSRPYEAPTPGAGWASTPGGNYSEAGTPRDSSAYANAPSPYLPSTPGGQPMTPSSASYLPGTPGGQPMTPGTGGMDMMSPVLGGENEGPWFIPDILVNVHRAGEESVGVIREVLPDGSYRVALGSSGNGEAITALPNEMEAVVPRKSDKIKIMGGALRGATGKLIGVDGTDGIVKVDDTLDVKILDLVILAKLAQP*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
|
|
|
