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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT5G06160 | AT | Annotation by Michelle Graham. TAIR10: splicing factor-related | chr5:1862623-1866298 REVERSE LENGTH=504 | SoyBase | E_val: 0 | ISS |
| GO:0000085 | GO-bp | Annotation by Michelle Graham. GO Biological Process: G2 phase of mitotic cell cycle | SoyBase | N/A | ISS |
| GO:0000741 | GO-bp | Annotation by Michelle Graham. GO Biological Process: karyogamy | SoyBase | N/A | ISS |
| GO:0006312 | GO-bp | Annotation by Michelle Graham. GO Biological Process: mitotic recombination | SoyBase | N/A | ISS |
| GO:0006406 | GO-bp | Annotation by Michelle Graham. GO Biological Process: mRNA export from nucleus | SoyBase | N/A | ISS |
| GO:0009560 | GO-bp | Annotation by Michelle Graham. GO Biological Process: embryo sac egg cell differentiation | SoyBase | N/A | ISS |
| GO:0009561 | GO-bp | Annotation by Michelle Graham. GO Biological Process: megagametogenesis | SoyBase | N/A | ISS |
| GO:0009640 | GO-bp | Annotation by Michelle Graham. GO Biological Process: photomorphogenesis | 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:0009845 | GO-bp | Annotation by Michelle Graham. GO Biological Process: seed germination | SoyBase | N/A | ISS |
| GO:0009909 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of flower development | SoyBase | N/A | ISS |
| GO:0009933 | GO-bp | Annotation by Michelle Graham. GO Biological Process: meristem structural organization | SoyBase | N/A | ISS |
| GO:0010074 | GO-bp | Annotation by Michelle Graham. GO Biological Process: maintenance of meristem identity | SoyBase | N/A | ISS |
| GO:0010162 | GO-bp | Annotation by Michelle Graham. GO Biological Process: seed dormancy process | SoyBase | N/A | ISS |
| GO:0010182 | GO-bp | Annotation by Michelle Graham. GO Biological Process: sugar mediated signaling pathway | SoyBase | N/A | ISS |
| GO:0010228 | GO-bp | Annotation by Michelle Graham. GO Biological Process: vegetative to reproductive phase transition of meristem | SoyBase | N/A | ISS |
| GO:0016567 | GO-bp | Annotation by Michelle Graham. GO Biological Process: protein ubiquitination | SoyBase | N/A | ISS |
| GO:0016571 | GO-bp | Annotation by Michelle Graham. GO Biological Process: histone methylation | SoyBase | N/A | ISS |
| GO:0016579 | GO-bp | Annotation by Michelle Graham. GO Biological Process: protein deubiquitination | SoyBase | N/A | ISS |
| GO:0019915 | GO-bp | Annotation by Michelle Graham. GO Biological Process: lipid storage | SoyBase | N/A | ISS |
| GO:0045694 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of embryo sac egg cell differentiation | 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:0050826 | GO-bp | Annotation by Michelle Graham. GO Biological Process: response to freezing | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0005829 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: cytosol | SoyBase | N/A | ISS |
| GO:0003676 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: nucleic acid binding | SoyBase | N/A | ISS |
| GO:0008270 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: zinc ion binding | SoyBase | N/A | ISS |
| KOG2636 | KOG | Splicing factor 3a, subunit 3 | JGI | ISS | |
| PTHR12786 | Panther | SPLICING FACTOR SF3A-RELATED | JGI | ISS | |
| PTHR12786:SF2 | Panther | PRP9 PROTEIN- RELATED | JGI | ISS | |
| PF11931 | PFAM | Domain of unknown function (DUF3449) | JGI | ISS | |
| PF12108 | PFAM | Splicing factor SF3a60 binding domain | JGI | ISS | |
| UniRef100_G7J6U4 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Splicing factor 3a n=2 Tax=Medicago truncatula RepID=G7J6U4_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_I1JYT2 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JYT2_SOYBN | SoyBase | E_val: 0 | ISS |
|
Glyma04g41530 not represented in the dataset |
Glyma04g41530 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 |
|---|---|---|
| Glyma06g13290 | 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.04g236800 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma04g41530.1 sequence type=CDS gene model=Glyma04g41530 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGTCGTCGACGGTGCTGGAAGTGACGCGGGCGGCACACGAGGAGGTGGAGCGGTTGGAGCGGCTGATAGTGAAGGAGCTCCAGAATGACCCGGCCTCCAACAAAGAGCGTTTGTATCAGAGTCACCGTGTGCGAAACATGATCGACACCATTACTTCCACAACTGAAAAGCTTATTGGAATATATGAAGATAGCGACAATGCAAGGAAGGATGAGATTGCCGCACTCGGAGGTCAAACTGCCACTGGAATTAACGTTTTCAGTGCCTTTTATGATAGACTCAAAGAGATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAACGACGATTATGAAACACTTCTCAATGAGGAACTTCAAATTGAGTTCAGTGGAGAGGAAGCACTTGGTCGATACTTAGACTTGCATGAATTATATTATCAGTATGTCAATTCTAAGTTTGGAGAGCCAATTGAGTATTCTGCATATCTTGATGTTTTCTCAGACACAGATAAGATTCCCCGCAAAATGAAAATGACCAGGCAGTACCGAGAATATTTGGCGAATCTTTTGGAGTATCTGTTATACTTTTTCCAGCGTACAGAGCCCCTGCAAGATCTTGATCGAATTTTGTCAAAGGTAACAACTGAATTTGAAGAAAGTTGGGCTGTTGGAAAGGTACAGGGATGGGAAAATGACAATCAGGAAAATGGACATGTACTTGCTGAGCATGCTACCATTGATCTTGATTATTATAGTACAGTTGAAGAGCTGATGGAAGTCGGTCCTGAAAGGTTAAAGGAGGCACTGGCTGCGTTGGGGCTGAAGACTGGTGGTACTGTTCAGCAACGTGCAGAGAGGCTCTTCCTCACAAAGCACACACCTCTTGAAAAGTTGGACAAGAAGCATTTTGCTAAGGGTGCACGTGGTGTAGAAAAGAATGGGGTTGCTGCAGTTTCACAAGAAGATGGAAATTCTAAAGAAATTGCATTGATGGAAGCCAAAATGACAAAACTTTGTGATTTGTTAGAGGAGACAATTGCTCGAACAAAAGACAATGTTGTAAAGAAGCAAGCCCTAACATATGAGGAAATGGAAGCAGAGCGCGAGGAGGAAGAGACACAAGAGGACACTGAAAGCGAAGATGAGGAGGAGCAGATATATAATCCCCTAAAATTACCAATGGGATGGGATGGGAAGCCTATACCTTATTGGCTGTATAAGCTACATGGTCTGGGTCAGGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCTTTCGAACGACATTTTAAAGAATGGCGCCATCAACATGGGATGCGGTGTCTTGGTATACCAAATACTAAGAATTTCAACGAAATCACATCAATTGAGGAAGCAAAGGAACTTTGGAAGAAGATACAGCAAAGACAAGGAGTGAACAAGTGGCGCCCGGATCTAGAGGAAGAGTATGAAGACAAAGAAGGCAACATCTATAATAAGAAGACATACACTGACTTACAGCGCCAGGGACTGATATGA
>Glyma04g41530.1 sequence type=predicted peptide gene model=Glyma04g41530 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MSSTVLEVTRAAHEEVERLERLIVKELQNDPASNKERLYQSHRVRNMIDTITSTTEKLIGIYEDSDNARKDEIAALGGQTATGINVFSAFYDRLKEIREYHRKHPVARVVDANDDYETLLNEELQIEFSGEEALGRYLDLHELYYQYVNSKFGEPIEYSAYLDVFSDTDKIPRKMKMTRQYREYLANLLEYLLYFFQRTEPLQDLDRILSKVTTEFEESWAVGKVQGWENDNQENGHVLAEHATIDLDYYSTVEELMEVGPERLKEALAALGLKTGGTVQQRAERLFLTKHTPLEKLDKKHFAKGARGVEKNGVAAVSQEDGNSKEIALMEAKMTKLCDLLEETIARTKDNVVKKQALTYEEMEAEREEEETQEDTESEDEEEQIYNPLKLPMGWDGKPIPYWLYKLHGLGQEFKCEICGNYSYWGRRAFERHFKEWRHQHGMRCLGIPNTKNFNEITSIEEAKELWKKIQQRQGVNKWRPDLEEEYEDKEGNIYNKKTYTDLQRQGLI*
| 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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