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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT2G36990 | AT | Annotation by Michelle Graham. TAIR10: RNApolymerase sigma-subunit F | chr2:15537502-15540016 REVERSE LENGTH=547 | SoyBase | E_val: 0 | ISS |
| GO:0006352 | GO-bp | Annotation by Michelle Graham. GO Biological Process: DNA-dependent transcription, initiation | 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:0009902 | GO-bp | Annotation by Michelle Graham. GO Biological Process: chloroplast relocation | SoyBase | N/A | ISS |
| GO:0009965 | GO-bp | Annotation by Michelle Graham. GO Biological Process: leaf morphogenesis | SoyBase | N/A | ISS |
| GO:0010027 | GO-bp | Annotation by Michelle Graham. GO Biological Process: thylakoid membrane organization | SoyBase | N/A | ISS |
| GO:0016117 | GO-bp | Annotation by Michelle Graham. GO Biological Process: carotenoid biosynthetic process | SoyBase | N/A | ISS |
| GO:0019288 | GO-bp | Annotation by Michelle Graham. GO Biological Process: isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway | SoyBase | N/A | ISS |
| GO:0030154 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cell differentiation | SoyBase | N/A | ISS |
| GO:0034660 | GO-bp | Annotation by Michelle Graham. GO Biological Process: ncRNA metabolic process | 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:0071482 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cellular response to light stimulus | SoyBase | N/A | ISS |
| GO:0071483 | GO-bp | Annotation by Michelle Graham. GO Biological Process: cellular response to blue light | SoyBase | N/A | ISS |
| GO:0090351 | GO-bp | Annotation by Michelle Graham. GO Biological Process: seedling development | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0009507 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast | SoyBase | N/A | ISS |
| GO:0009536 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: plastid | 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: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:0016987 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: sigma factor activity | SoyBase | N/A | ISS |
| PF04539 | PFAM | Sigma-70 region 3 | JGI | ISS | |
| PF04542 | PFAM | Sigma-70 region 2 | JGI | ISS | |
| PF04545 | PFAM | Sigma-70, region 4 | JGI | ISS | |
| UniRef100_G7IA88 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: RNA polymerase sigma factor n=1 Tax=Medicago truncatula RepID=G7IA88_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_I1L8Z5 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1L8Z5_SOYBN | SoyBase | E_val: 0 | ISS |
|
Glyma10g06500 not represented in the dataset |
Glyma10g06500 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 |
|---|---|---|
| Glyma13g20700 | 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.10g057300 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma10g06500.1 sequence type=CDS gene model=Glyma10g06500 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGAATTCGCCAGGACCATGTTCTGTTCTTCTCCACCGTTCCCTCCAAGAACTCATCACCCTTGGAGCACTCTCCCCTCGTCCTCTTCTACTTCTTCCGTTTTGATGCTTCACGAACAAGCTTCCCCTACAGTTGCCTCTTGGTCTTCTAATTTTTCAGCACAGAATTTTCCTGCCTCAGTTCTTTTACCAGAGCAGCGTGATGAATATAGGCCTCTTCTGCACATGTCTAAGGAAGACAAGACATCACAGGCAATGTTAAGTACAAGGCAGATGGATACAGTCACGGTTCATGAAGAGAATAACACGGAAAATGCTGATCAGGTAGTGCTTGACTTTAGGAAGCACCTGCATCACTGGCCTAATTTACAGTACTTATTAACTTCCTCACAAATAGGGGAAGTTGCTGCTTCTTCAACTTTAGAGCATGTTTCTGTTGACTTGGAGAGGCGTCCAAATGGTGTGCAATTTAATGGAGTTTCTCTTGCTAAGAAAGCTTTGTCTACCTCGAAACAAGAATCCTCAGTAGTTGAAGACTTGAAATCAATTAAAGCTGATGATGATTCAATTCCTTTTGGTCTGGCCTCTACTAGCTTGGCTGATCCTTCAATTGGAAGAAATAAAACTGTGAGGTCAACACGGCTTCTAGAGAGACGATCAAAACAAAGAAAAGTACCTAAGTCGAAAGTTATAGACGATGAAACCTACCTTGCAAGAAAGGATGATGCACAAGAAAAGCTACGTGCAGAAAAGAAGAAAAATGAAGAACTTGATCAAGATGATCCCCTGCGCTTGTTCTTGTGGGGTCCCGAAACAAAACAACTTTTGACACTTGAACAAGAATCTCAACTGATATCTCAGATACAGGACTTATTGAGATTGGAAGAAGTGAAGACCAATCTTCAATCTCAATTTGGAAGGGAACCAACTATGGCTGAATGGGCAGAGGGTGCAGGACTTAATTGTCGATTGCTGCAATCACAGCTTCATTCTGGTAACAGAAGCAGAGAAAAGCTTATTCAAGCAAATTTACGCATGGTAGTCCATGTTGCCAAAAGTTATCAGGGGCGTGGTCTCAGCCTTCAGGACTTACTACAGGAGGGAAGTATGGGTCTTATGAAGAGTGTTGAAAAATTCAATCCCCTAGCCGGTAGTCGATTTGGTAATTATGCATTCTGGTGGATAAGGCAAGCAATAAGGAAGGCAGTGTTTCGACATTCCAGGACAATCCGTCTACCGGAGAAGGTATTTATCCTATTGGGCAAGGTAATGGAGGCTAAGAAATTGTACATTCAGGAAGGAAACCTTCACCCAACTAAAGAAGAATTAGCAAGAAGGGTAGGAGTTACTGTAGAAAAGATTGACAAATTACTATTTTCTGCAAGAATTCCAATTTCAATGCAGCAAACTGTGTGGGCTGACCAAAATACAACTTTCCAGGAGATTACTGCAGACCCCACTGTTGAGGCCACAGATGTGACTGTCGAAAAACAGCTTATGAGAAGGCATGTTCTCAATGTCCTAAGTGTCTTACACCCAAAAGAGAGGAGAATTATCCGGTTAAGATATGGTTTTGAGGATGGTGAACAGAAATCTTTATCAGAGATCGGAGACATATTTGGTTTGTCTAAGGAAAGGGTTCGTCAATTGGAGATCCGAGCACTATACAAGCTGAAGAAGTGCCTTGTCAAACAAGGACTTGATGCTTATGTAGACTTGCTTCTATAG
>Glyma10g06500.1 sequence type=predicted peptide gene model=Glyma10g06500 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MEFARTMFCSSPPFPPRTHHPWSTLPSSSSTSSVLMLHEQASPTVASWSSNFSAQNFPASVLLPEQRDEYRPLLHMSKEDKTSQAMLSTRQMDTVTVHEENNTENADQVVLDFRKHLHHWPNLQYLLTSSQIGEVAASSTLEHVSVDLERRPNGVQFNGVSLAKKALSTSKQESSVVEDLKSIKADDDSIPFGLASTSLADPSIGRNKTVRSTRLLERRSKQRKVPKSKVIDDETYLARKDDAQEKLRAEKKKNEELDQDDPLRLFLWGPETKQLLTLEQESQLISQIQDLLRLEEVKTNLQSQFGREPTMAEWAEGAGLNCRLLQSQLHSGNRSREKLIQANLRMVVHVAKSYQGRGLSLQDLLQEGSMGLMKSVEKFNPLAGSRFGNYAFWWIRQAIRKAVFRHSRTIRLPEKVFILLGKVMEAKKLYIQEGNLHPTKEELARRVGVTVEKIDKLLFSARIPISMQQTVWADQNTTFQEITADPTVEATDVTVEKQLMRRHVLNVLSVLHPKERRIIRLRYGFEDGEQKSLSEIGDIFGLSKERVRQLEIRALYKLKKCLVKQGLDAYVDLLL*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
|
|
|
