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A newer version of this gene model can be found here: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 |
|---|---|---|---|---|---|
| AT5G23120 | AT | Annotation by Michelle Graham. TAIR10: photosystem II stability/assembly factor, chloroplast (HCF136) | chr5:7778154-7780463 FORWARD LENGTH=403 | SoyBase | E_val: 0 | ISS |
| GO:0006098 | GO-bp | Annotation by Michelle Graham. GO Biological Process: pentose-phosphate shunt | SoyBase | N/A | ISS |
| GO:0006364 | GO-bp | Annotation by Michelle Graham. GO Biological Process: rRNA processing | SoyBase | N/A | ISS |
| GO:0009637 | GO-bp | Annotation by Michelle Graham. GO Biological Process: response to blue light | SoyBase | N/A | ISS |
| GO:0009657 | GO-bp | Annotation by Michelle Graham. GO Biological Process: plastid organization | SoyBase | N/A | ISS |
| GO:0009902 | GO-bp | Annotation by Michelle Graham. GO Biological Process: chloroplast relocation | SoyBase | N/A | ISS |
| GO:0010027 | GO-bp | Annotation by Michelle Graham. GO Biological Process: thylakoid membrane organization | SoyBase | N/A | ISS |
| GO:0010114 | GO-bp | Annotation by Michelle Graham. GO Biological Process: response to red light | SoyBase | N/A | ISS |
| GO:0010207 | GO-bp | Annotation by Michelle Graham. GO Biological Process: photosystem II assembly | SoyBase | N/A | ISS |
| GO:0010218 | GO-bp | Annotation by Michelle Graham. GO Biological Process: response to far red light | SoyBase | N/A | ISS |
| GO:0010304 | GO-bp | Annotation by Michelle Graham. GO Biological Process: PSII associated light-harvesting complex II catabolic process | SoyBase | N/A | ISS |
| GO:0015995 | GO-bp | Annotation by Michelle Graham. GO Biological Process: chlorophyll biosynthetic process | SoyBase | N/A | ISS |
| GO:0016117 | GO-bp | Annotation by Michelle Graham. GO Biological Process: carotenoid biosynthetic process | SoyBase | N/A | ISS |
| GO:0034660 | GO-bp | Annotation by Michelle Graham. GO Biological Process: ncRNA metabolic process | SoyBase | N/A | ISS |
| GO:0035304 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of protein dephosphorylation | SoyBase | N/A | ISS |
| GO:0042744 | GO-bp | Annotation by Michelle Graham. GO Biological Process: hydrogen peroxide catabolic process | SoyBase | N/A | ISS |
| GO:0042793 | GO-bp | Annotation by Michelle Graham. GO Biological Process: transcription from plastid promoter | 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:0046686 | GO-bp | Annotation by Michelle Graham. GO Biological Process: response to cadmium ion | SoyBase | N/A | ISS |
| GO:0009507 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast | SoyBase | N/A | ISS |
| GO:0009533 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast stromal thylakoid | SoyBase | N/A | ISS |
| GO:0009534 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast thylakoid | SoyBase | N/A | ISS |
| GO:0009535 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast thylakoid membrane | SoyBase | N/A | ISS |
| GO:0009543 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast thylakoid lumen | SoyBase | N/A | ISS |
| GO:0009570 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast stroma | SoyBase | N/A | ISS |
| GO:0009579 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: thylakoid | SoyBase | N/A | ISS |
| GO:0009941 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast envelope | SoyBase | N/A | ISS |
| GO:0030095 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: chloroplast photosystem II | SoyBase | N/A | ISS |
| GO:0031977 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: thylakoid lumen | SoyBase | N/A | ISS |
| UniRef100_G7JPH8 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Photosystem II stability/assembly factor HCF136 n=1 Tax=Medicago truncatula RepID=G7JPH8_MEDTR | SoyBase | E_val: 0 | ISS |
| UniRef100_I1LPJ4 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1LPJ4_SOYBN | SoyBase | E_val: 0 | ISS |
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Glyma12g03020 not represented in the dataset |
Glyma12g03020 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 |
|---|---|---|
| Glyma11g10710 | 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.12g026900 | Wm82.a2.v1 | IGC | As supplied by JGI |
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma12g03020.1 sequence type=CDS gene model=Glyma12g03020 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGCGACTCTGCGGCTCACCTTCTCCGACTCAACCACCTTGTTCAGGCCTTCTCTACCTTCCACGCGAACCTTCTCTCGAAACCGAAGCCTCATTGTCAAAGCCTCTTCTTCTGAAGACGATTTCTCCAGAAGCAGCAGAAGACGCTTCATCGCCGAAACCGCCGCACTCTCGGTCTCGCTCCCTCAGTTAACGGCGCGTTCTGAAGACGCGCTTTCGGAGTGGGAGAGAGTGTACCTCCCTATCGACCCCGGCGTCGTGCTTCTCGACATCGCTTTTGTCCCCGACGACCCCAACCACGGTTTTCTTCTCGGGACGAGGCAAACCATTCTGGAGACGAAAGATGGAGGAAACACTTGGGCTCCGCGTTCGATTCCTTCTGCTGAAGACGAAGATTTCAACTATCGATTCAATTCTATCAGCTTCAAAGGGAAGGAAGGGTGGATTGTCGGAAAACCTTCGATTCTGTTGTACACTTCCGATGCCGGAGACAGTTGGGAGAGGATACCTCTCAGTGCTGAACTTCCAGGGGATATGGTGTACATAAAGGCGACCGGTGAGAAGAGTGCGGAGATGGTGACCGACGAAGGTGCAATATATGTTACTGCAAACAGAGGTTACAACTGGAGGGCTGCTGTCCAGGAAACTGTGTCAGCTACTCTTAACAGAACAGTTTCTAGTGGTATTAGTGGTGCAAGCTACTACACTGGAACTTTCAATACTGTCAATCGCTCTCCAGATGGAAGGTATGTTGCAGTCTCAAGTCGGGGAAACTTCTACTTAACCTGGGAGCCTGGTCAGCCATTCTGGCAGCCACATAATAGAGCAGTTGCCAGAAGAATCCAGAACATGGGATGGAGAGCTGATGGTGGTCTGTGGCTTCTTGTTCGTGGAGGTGGTCTTTATCTCAGCAAGGGCAAAGGGTTAACTGAAGAATTTGAGGAGGTTCCTGTTCAAAGCCGGGGTTTTGGCATTCTTGATGTTGGATATCGTTCAACGGATGAGGCTTGGGCAGCAGGAGGAAGTGGTATTCTCTTGAGAACTACTAATGGTGGCAAGTCATGGATCCGTGACAAAGCTGCCGACAACATTGCTGCGAATTTATACTCAGTGAAGTTCATTGATGAGAAGAAGGGATTTGTATTGGGGAATGATGGAGTCTTGCTCCGCTACCTTGGATAG
>Glyma12g03020.1 sequence type=predicted peptide gene model=Glyma12g03020 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MATLRLTFSDSTTLFRPSLPSTRTFSRNRSLIVKASSSEDDFSRSSRRRFIAETAALSVSLPQLTARSEDALSEWERVYLPIDPGVVLLDIAFVPDDPNHGFLLGTRQTILETKDGGNTWAPRSIPSAEDEDFNYRFNSISFKGKEGWIVGKPSILLYTSDAGDSWERIPLSAELPGDMVYIKATGEKSAEMVTDEGAIYVTANRGYNWRAAVQETVSATLNRTVSSGISGASYYTGTFNTVNRSPDGRYVAVSSRGNFYLTWEPGQPFWQPHNRAVARRIQNMGWRADGGLWLLVRGGGLYLSKGKGLTEEFEEVPVQSRGFGILDVGYRSTDEAWAAGGSGILLRTTNGGKSWIRDKAADNIAANLYSVKFIDEKKGFVLGNDGVLLRYLG*
| 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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