Glyma10g28540 - SoyBase

SoyBase SoyBase transitions to NEW site on 10/1/2024
Integrating Genetics and Genomics to Advance Soybean Research

Report for Sequence Feature Glyma10g28540

Feature Type:	gene_model
Chromosome:	Gm10
Start:	37425786
stop:	37427243
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma10g28540

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT5G26749	AT	Annotation by Michelle Graham. TAIR10: C2H2 and C2HC zinc fingers superfamily protein \| chr5:9398285-9399239 REVERSE LENGTH=147	SoyBase	E_val: 3.00E-30	ISS
PTHR16465	Panther	NUCLEASE-RELATED	JGI		ISS
PF00642	PFAM	Zinc finger C-x8-C-x5-C-x3-H type (and similar)	JGI		ISS
PF06220	PFAM	U1 zinc finger	JGI		ISS
UniRef100_I1LB10	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1LB10_SOYBN	SoyBase	E_val: 6.00E-88	ISS
UniRef100_Q0JP11	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Zinc finger CCCH domain-containing protein 3 n=3 Tax=Oryza sativa RepID=C3H3_ORYSJ	SoyBase	E_val: 1.00E-34	ISS

Expression Patterns of Glyma10g28540

Gene expression representations made with eFP at the University of Toronto.
Waese et al. 2017, Plant Cell 29(8):1806-1821 ePlant: Visualizing and Exploring Multiple Levels of Data for Hypothesis Generation in Plant Biology


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

To see more experiments click HERE

Paralogs of Glyma10g28540

Paralog	Evidence	Comments
Glyma20g22611	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.

Gene model name correspondences to Glyma10g28540 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.10g144700	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma10g28540

Schmutz et al. 2010
Genome sequence of the palaeopolyploid soybean
Nature 2010, 463:178-183

Transcripts of Glyma10g28540

Limit To All Plant Sequences

>Glyma10g28540.2   sequence type=transcript   gene model=Glyma10g28540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATTCACGCTCCCTGTATTTTATGCAAATTATATAAGATTGAAAGCGTGAGAATGCCGGTGAAGAAGTATTACTGCGATTACTGCGACAAGCTATTCCAAGACACACCAGCAGATCGGAAACGACACGTTCAGGGCATTCAACACCACCAAGCCAAAGCTCGCTGGTACGATTCCTTCAAACAACAACAAATCCCTCCGATTCCCAATCGACCCCTTTGCTTTCACTTCGTCAACACGGGATTTTGCCGCTACGGCGACTCTTGCAAATATCTCCATCCCGTTCCCAACAACAATGTCCAGCAGCCGCCAATCGTAACCACACCGTCGCCTTCACCAGGGAGTGTGGTAGGAGTGTCATTCGGCAATCTTCCCCCCTCCCTGCAGCCTCCGCCTGACGGCGTATATCTCCACCTTCCCTTTCTCGACTGGGGATAGATTTGTAATTCTACCCACTTCTCATAACTGCATCTCCGTGTCTGTGTTCTGTTCAATCATTTCTTAATTTAACCTTTTAGTTCTTCTAATTTTCATTGTGTGGCTGGATTCTAGTGATTTCTTATGACCTAGCTCCACCGTATTATTTGGAGTTTTCTTATATCTACCCAACGCTTAACTTATGATTAAATCCAAAATCTATCTTATTGTAATACAGTATGATAATAGACTGCTGAGTTTGCTTTAACACATACATTTATAAGCATTTTTCACCTGAAGCAGCCTGGAGCCCTGGACAGTATTATCCACCAGTTTTCACTTCACGACGCTGTTATTGGCAGTGATGCCAATAACTTTAAAAAAAGATTCATTTTTACT

Coding sequences of Glyma10g28540

Limit To All Plant Sequences

>Glyma10g28540.1   sequence type=CDS   gene model=Glyma10g28540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCCGGTGAAGAAGTATTACTGCGATTACTGCGACAAGCTATTCCAAGACACACCAGCAGATCGGAAACGACACGTTCAGGGCATTCAACACCACCAAGCCAAAGCTCGCTGGTACGATTCCTTCAAACAACAACAAATCCCTCCGATTCCCAATCGACCCCTTTGCTTTCACTTCGTCAACACGGGATTTTGCCGCTACGGCGACTCTTGCAAATATCTCCATCCCGTTCCCAACAACAATGTCCAGCAGCCGCCAATCGTAACCACACCGTCGCCTTCACCAGGGAGTGTGGTAGGAGTGTCATTCGGCAATCTTCCCCCCTCCCTGCAGCCTCCGCCTGACGGCGTATATCTCCACCTTCCCTTTCTCGACTGGGGATAG

>Glyma10g28540.2   sequence type=CDS   gene model=Glyma10g28540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCCGGTGAAGAAGTATTACTGCGATTACTGCGACAAGCTATTCCAAGACACACCAGCAGATCGGAAACGACACGTTCAGGGCATTCAACACCACCAAGCCAAAGCTCGCTGGTACGATTCCTTCAAACAACAACAAATCCCTCCGATTCCCAATCGACCCCTTTGCTTTCACTTCGTCAACACGGGATTTTGCCGCTACGGCGACTCTTGCAAATATCTCCATCCCGTTCCCAACAACAATGTCCAGCAGCCGCCAATCGTAACCACACCGTCGCCTTCACCAGGGAGTGTGGTAGGAGTGTCATTCGGCAATCTTCCCCCCTCCCTGCAGCCTCCGCCTGACGGCGTATATCTCCACCTTCCCTTTCTCGACTGGGGATAG

Predicted protein sequences of Glyma10g28540

Limit To All Plant Sequences

>Glyma10g28540.1   sequence type=predicted peptide   gene model=Glyma10g28540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MPVKKYYCDYCDKLFQDTPADRKRHVQGIQHHQAKARWYDSFKQQQIPPIPNRPLCFHFVNTGFCRYGDSCKYLHPVPNNNVQQPPIVTTPSPSPGSVVGVSFGNLPPSLQPPPDGVYLHLPFLDWG*

>Glyma10g28540.2   sequence type=predicted peptide   gene model=Glyma10g28540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MPVKKYYCDYCDKLFQDTPADRKRHVQGIQHHQAKARWYDSFKQQQIPPIPNRPLCFHFVNTGFCRYGDSCKYLHPVPNNNVQQPPIVTTPSPSPGSVVGVSFGNLPPSLQPPPDGVYLHLPFLDWG*

Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA

U.S. Public Domain