Glyma08g06310 - SoyBase

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

Warning: Undefined variable $sxsome in /var/www/html/include/SeqFeatClass.php on line 665

Warning: Undefined variable $sstart in /var/www/html/include/SeqFeatClass.php on line 665

Warning: Undefined variable $send in /var/www/html/include/SeqFeatClass.php on line 665

Warning: get_headers(): php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1018

Warning: get_headers(https://bar.utoronto.ca/api/efp_image/efp_soybean/soybean/Absolute/Glyma08g06310): Failed to open stream: php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1018

Warning: Trying to access array offset on false in /var/www/html/include/SeqFeatClass.php on line 1019

Warning: get_headers(): php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1020

Warning: get_headers(https://bar.utoronto.ca/api/efp_image/efp_soybean/soybean_severin/Absolute/Glyma08g06310): Failed to open stream: php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1020

Warning: Trying to access array offset on false in /var/www/html/include/SeqFeatClass.php on line 1021

Deprecated: preg_match(): Passing null to parameter #2 ($subject) of type string is deprecated in /var/www/html/include/SeqFeatClass.php on line 1025

Deprecated: preg_match(): Passing null to parameter #2 ($subject) of type string is deprecated in /var/www/html/include/SeqFeatClass.php on line 1031

Report for Sequence Feature Glyma08g06310

Feature Type:	gene_model
Chromosome:	Gm08
Start:	4473398
stop:	4475269
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma08g06310

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G11240	AT	Annotation by Michelle Graham. TAIR10: CONTAINS InterPro DOMAIN/s: Nucleolar protein 12 (InterPro:IPR019186); Has 2484 Blast hits to 1934 proteins in 262 species: Archae - 0; Bacteria - 90; Metazoa - 921; Fungi - 378; Plants - 144; Viruses - 18; Other Eukaryotes - 933 (source: NCBI BLink). \| chr1:3766936-3768212 REVERSE LENGTH=200	SoyBase	E_val: 2.00E-23	ISS
GO:0000398	GO-bp	Annotation by Michelle Graham. GO Biological Process: mRNA splicing, via spliceosome	SoyBase	N/A	ISS
GO:0006302	GO-bp	Annotation by Michelle Graham. GO Biological Process: double-strand break repair	SoyBase	N/A	ISS
GO:0006312	GO-bp	Annotation by Michelle Graham. GO Biological Process: mitotic recombination	SoyBase	N/A	ISS
GO:0007062	GO-bp	Annotation by Michelle Graham. GO Biological Process: sister chromatid cohesion	SoyBase	N/A	ISS
GO:0007129	GO-bp	Annotation by Michelle Graham. GO Biological Process: synapsis	SoyBase	N/A	ISS
GO:0007131	GO-bp	Annotation by Michelle Graham. GO Biological Process: reciprocal meiotic recombination	SoyBase	N/A	ISS
GO:0008150	GO-bp	Annotation by Michelle Graham. GO Biological Process: biological process	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:0042138	GO-bp	Annotation by Michelle Graham. GO Biological Process: meiotic DNA double-strand break formation	SoyBase	N/A	ISS
GO:0042991	GO-bp	Annotation by Michelle Graham. GO Biological Process: transcription factor import into nucleus	SoyBase	N/A	ISS
GO:0045132	GO-bp	Annotation by Michelle Graham. GO Biological Process: meiotic chromosome segregation	SoyBase	N/A	ISS
GO:0051604	GO-bp	Annotation by Michelle Graham. GO Biological Process: protein maturation	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0003674	GO-mf	Annotation by Michelle Graham. GO Molecular Function: molecular function	SoyBase	N/A	ISS
PTHR14577	Panther	UNCHARACTERIZED	JGI		ISS
PF09805	PFAM	Nucleolar protein 12 (25kDa)	JGI		ISS
UniRef100_C6SX07	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=C6SX07_SOYBN	SoyBase	E_val: 2.00E-129	ISS
UniRef100_Q10LE2	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Expressed protein n=1 Tax=Oryza sativa Japonica Group RepID=Q10LE2_ORYSJ	SoyBase	E_val: 3.00E-23	ISS

Expression Patterns of Glyma08g06310

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

Glyma08g06310 not represented in the dataset	Glyma08g06310 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

To see more experiments click HERE

Paralogs of Glyma08g06310

Paralog	Evidence	Comments
Glyma07g31000	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 Glyma08g06310 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.08g058500	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma08g06310

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

Transcripts of Glyma08g06310

Limit To All Plant Sequences

>Glyma08g06310.4   sequence type=transcript   gene model=Glyma08g06310   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ACAAACATGTGTAGCAATGAAAAGAAAAGGAGTTGTGTAATCTAGGTTTTGGTTGATTGCGGGATGGAAGTGGAGGCAGTGCAACAACAGCGCAAAGGAGCGCACCTGAAGAAGAGGGCTCTGAAGAACAAAGCTTTGGGCATCACTTTCAACGAGAAAGATCTCACTGACTACGTCACCGGCTTTCACAAGCGCAAGAAGAAGAGAAGAAAGGAAGCCCAGAAGCAACAGAACGAGGCTCTGCGCCGCAAACGCACCGAGGAACGCAAAAGGAGGAAGTTGGAAAGAGAACATGTTCTTAATGGAGGCGTGCCACCACCTGATGAAATTGATGGGGACCAAGAAGAAACCGAGGAGCAAGTTGAATCTATTGCTGAAACAAAGACATACGAGAATGATGATCTGAAAGTCACTGTTGTAACAAGTGAGATCAACCCTGAGGACGGTAGTTATCCTAGTGAGAGGAAGGAGGCAGCAGTGATCCCTCCTTCTGTTGTGTCTGATAAAAGGCAAGGGGTACCTATAAGTAATAAGAAATCTTTCAAGAAGGTTGCAAAACAGAGGTCTCGGCCAAGGCCATCAAGTAAGAGAGATAAGAAGAAAGGAAAGAAGCAGGGCAAGAAGTAATGGAAGCTAAGCATCTTGCATCTTCAGAACATTCCAAGTCTACGATGAAGTGTGTTTTTGTGGAGGAGTTTCTTCTTCAGGGCTATTCCTGACTTTCCATTTTGGGGATTCAAGAGTTATGGAAGAAACACCTAATTTTTCTCCTTTTCTTTTGGTTAATCGGTAATCTATTGTGTATTATACATTTACTTCATTCACATATTTTAATTATTAGTTTTTCATTTCTTTTCTCTTTTTATTGTTTCAAATGTTAGTTTCTGAGAAGGCTTTCAGTTTCTTTTGGGGCGCTATGATTCATCTTTATATGGAGAGTTATAATGAATCAAGATCTCTTGGGTTTTGTTTAGATAAATTTATGTATGTAATAGAAGATAAGATAAAATGAATTGAGCTTCTTGTGTAAGCTGAAATCAACTT

Coding sequences of Glyma08g06310

Limit To All Plant Sequences

>Glyma08g06310.3   sequence type=CDS   gene model=Glyma08g06310   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAAGTGGAGGCAGTGCAACAACAGCGCAAAGGAGCGCACCTGAAGAAGAGGGCTCTGAAGAACAAAGCTTTGGGCATCACTTTCAACGAGAAAGATCTCACTGACTACGTCACCGGCTTTCACAAGCGCAAGAAGAAGAGAAGAAAGGAAGCCCAGAAGCAACAGAACGAGGCTCTGCGCCGCAAACGCACCGAGGAACGCAAAAGGAGGAAGTTGGAAAGAGAACATGTTCTTAATGGAGGCGTGCCACCACCTGATGAAATTGATGGGGACCAAGAAGAAACCGAGGAGCAAGTTGAATCTATTGCTGAAACAAAGACATACGAGAATGATGATCTGAAAGTCACTGTTGTAACAAGTGAGATCAACCCTGAGGACGGTAGTTATCCTAGTGAGAGGAAGGAGGCAGCAGTGATCCCTCCTTCTGTTGTGTCTGATAAAAGGCAAGGGGTACCTATAAGTAATAAGAAATCTTTCAAGAAGGTTGCAAAACAGAGGTCTCGGCCAAGGCCATCAAGTAAGAGAGATAAGAAGAAAGGAAAGAAGCAGGGCAAGAAGTAA

>Glyma08g06310.4   sequence type=CDS   gene model=Glyma08g06310   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAAGTGGAGGCAGTGCAACAACAGCGCAAAGGAGCGCACCTGAAGAAGAGGGCTCTGAAGAACAAAGCTTTGGGCATCACTTTCAACGAGAAAGATCTCACTGACTACGTCACCGGCTTTCACAAGCGCAAGAAGAAGAGAAGAAAGGAAGCCCAGAAGCAACAGAACGAGGCTCTGCGCCGCAAACGCACCGAGGAACGCAAAAGGAGGAAGTTGGAAAGAGAACATGTTCTTAATGGAGGCGTGCCACCACCTGATGAAATTGATGGGGACCAAGAAGAAACCGAGGAGCAAGTTGAATCTATTGCTGAAACAAAGACATACGAGAATGATGATCTGAAAGTCACTGTTGTAACAAGTGAGATCAACCCTGAGGACGGTAGTTATCCTAGTGAGAGGAAGGAGGCAGCAGTGATCCCTCCTTCTGTTGTGTCTGATAAAAGGCAAGGGGTACCTATAAGTAATAAGAAATCTTTCAAGAAGGTTGCAAAACAGAGGTCTCGGCCAAGGCCATCAAGTAAGAGAGATAAGAAGAAAGGAAAGAAGCAGGGCAAGAAGTAA

Predicted protein sequences of Glyma08g06310

Limit To All Plant Sequences

>Glyma08g06310.3   sequence type=predicted peptide   gene model=Glyma08g06310   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEVEAVQQQRKGAHLKKRALKNKALGITFNEKDLTDYVTGFHKRKKKRRKEAQKQQNEALRRKRTEERKRRKLEREHVLNGGVPPPDEIDGDQEETEEQVESIAETKTYENDDLKVTVVTSEINPEDGSYPSERKEAAVIPPSVVSDKRQGVPISNKKSFKKVAKQRSRPRPSSKRDKKKGKKQGKK*

>Glyma08g06310.4   sequence type=predicted peptide   gene model=Glyma08g06310   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEVEAVQQQRKGAHLKKRALKNKALGITFNEKDLTDYVTGFHKRKKKRRKEAQKQQNEALRRKRTEERKRRKLEREHVLNGGVPPPDEIDGDQEETEEQVESIAETKTYENDDLKVTVVTSEINPEDGSYPSERKEAAVIPPSVVSDKRQGVPISNKKSFKKVAKQRSRPRPSSKRDKKKGKKQGKK*

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