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


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/Glyma.04g088000): 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/Glyma.04g088000): 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 Glyma.04g088000

Feature Type:gene_model
Chromosome:Gm04
Start:7528445
stop:7533909
Source:JGI
Version:Wm82.a2.v1
High confidence:yes



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

Annotations for Glyma.04g088000
Database IDAnnotation TypeAnnotation DescriptionAnnotation SourceMatch ScoreEvidence Code
AT4G08170.2AT Inositol 1,3,4-trisphosphate 5/6-kinase family protein JGI N/AIEA
GO:0016310GO-bp phosphorylation EnsemblGenomesN/AIEA
GO:0032957GO-bp inositol trisphosphate metabolic process EnsemblGenomesN/AIEA
GO:0032957GO-bp inositol trisphosphate metabolic process JGI N/AIEA
GO:0005622GO-cc intracellular EnsemblGenomesN/AIEA
GO:0005622GO-cc intracellular JGI N/AIEA
GO:0000166GO-mf nucleotide binding EnsemblGenomesN/AIEA
GO:0000287GO-mf magnesium ion binding EnsemblGenomesN/AIEA
GO:0000287GO-mf magnesium ion binding JGI N/AIEA
GO:0005524GO-mf ATP binding EnsemblGenomesN/AIEA
GO:0005524GO-mf ATP binding JGI N/AIEA
GO:0016301GO-mf kinase activity EnsemblGenomesN/AIEA
GO:0016740GO-mf transferase activity EnsemblGenomesN/AIEA
GO:0046872GO-mf metal ion binding EnsemblGenomesN/AIEA
GO:0047325GO-mf inositol tetrakisphosphate 1-kinase activity EnsemblGenomesN/AIEA
GO:0047325GO-mf inositol tetrakisphosphate 1-kinase activity JGI N/AIEA
GO:0052725GO-mf inositol-1,3,4-trisphosphate 6-kinase activity EnsemblGenomesN/AIEA
GO:0052725GO-mf inositol-1,3,4-trisphosphate 6-kinase activity JGI N/AIEA
GO:0052726GO-mf inositol-1,3,4-trisphosphate 5-kinase activity EnsemblGenomesN/AIEA
GO:0052726GO-mf inositol-1,3,4-trisphosphate 5-kinase activity JGI N/AIEA
PTHR14217Panther FAMILY NOT NAMED JGI N/AIEA
PF05770PFAM Inositol 1, 3, 4-trisphosphate 5/6-kinase JGI N/AIEA
PWY-4562SoyCyc9 lipid-dependent phytate biosynthesis II (via Ins(1,3,4)P3) Plant Metabolic Network ISS
PWY-4661SoyCyc9 1D-myo-inositol hexakisphosphate biosynthesis III (Spirodela polyrrhiza) Plant Metabolic Network ISS
PWY-4765SoyCyc9 superpathway of lipid-dependent phytate biosynthesis Plant Metabolic Network ISS
PWY-6554SoyCyc9 1D-myo-inositol hexakisphosphate biosynthesis V (from Ins(1,3,4)P3) Plant Metabolic Network ISS
GN7V-57098SoyCyc9-rxn inositol-1,3,4-trisphosphate 5/6-kinase Plant Metabolic Network ISS

Expression Patterns of Glyma.04g088000
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

Glyma.04g088000 not represented in the dataset
Glyma.04g088000 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

Related Legume Genes

View a gene family containing related genes from other legumes at LIS

Gene families from Phytozome are displayed using the PhyloTree viewer developed by LIS.


View gene and ortholog information at GlycineMine

Gene information in GlycineMine developed by LIS.


Related Plant Genes

View a gene family containing related genes from other plant species at PhyloGenes

Gene families from PhyloGenes.


Paralogs of Glyma.04g088000
ParalogEvidenceComments
Glyma.06g089800 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 0.35.

Gene model name correspondences to Glyma.04g088000 Gene Call Version Wm82.a2.v1
Corresponding NameAnnotation VersionEvidenceComments
Glyma04g09290 Wm82.a1.v1.1IGC As supplied by JGI


Transcripts of Glyma.04g088000
>Glyma.04g088000.2 sequence-type=transcript locus=Glyma.04g088000 ID=Glyma.04g088000.2.Wm82.a2.v1 annot-version=Wm82.a2.v1
TTTCAATTTCAATTAACGAGGTTCTTCCAACACGCGTCGTTTTCATTAGGCTGGCGAGAAAGCGAAAGAAAATATATGTGATACTCAGAGAATCTGTGTTGAGAATGGGAAGATATTTTACCATTTTTGTTCTTGTTTTTTCGGGAATTATAGGAACCCGTGCTCTTTCTGATAAACATAAAAGTTTTGTTGATGGAAACGTTGATTTGCCTAACAGCCTCACAAATTCTGAATACCTTCTTTGTTTTCTAGTGTCGTCCCTGATTTTATGGTTCAATAATGAACAAGGGAATACTATTCGTGGCTGTTGACCACAATAGGCCTCTTTCAGATCAAGGTCCTTTTGATATTGTCTTGCATAAGTTATCAGGGAAAGAGTGGCGCCAGGTTCTTGAGGATTATAGGCTGTCACATCCGGAAGTTACTGTTCTGGATCCTCCAGATGCCATACAACATTTACGCAACCGGCAGTATATGCTTCAGGCTGTTGCGGATATGAACCTTTCTGATTCCTATGGCACTGTTGGTGTTCCTCGGCAATTAGTTATCAAGAGAGACGCATTAGCCATCCCAGAGTTGGTCAACAAAGCTGGCTTGACTTTACCCCTTGTTGCAAAGCCACTAGTTGCCGATGGAAGTGCAAAGTCCCATGAATTATCCCTTGCTTATGAGCATTTTTCCCTTCAAAATCTTGAACCTCCTCTTGTGCTCCAGGAGTTTGTCAACCATGGAGGTGTTCTCTTCAAGGTTTATATAGTTGGTGATGCTATAAAGGTTGTAAGGCGGTTTTCGTTACCTGATGTTAGCAACTGGGAACTCTCCAAAGATGCTGGTATATATCGCTTTCCAAGGGTTTCTTGTGCTGCAGCTTCTGCGGATGATGCAGATCTGGATCCTACTGTTGCCGAGCTTCCTCCAAGACCTTTACTAGAGAAACTGGCTAAGGAGCTTCGATGGCGATTGGGTCTTCGCCTATTCAACCTGGATATTATCCGTGAGTATGGAACAAGAGATCACTTTTACGTCATTGACATAAACTACTTCCCTGGGTATGGCAAAATGCCAGAATATGAACACATATTTACAGACTTCCTGTTGAGCCTGGGGCAGGGGAATTACAAGAAAAAATAGGCTAAAGTAACTCTTTCCAGCCCTTTGATTTATGTGCCTCTCATAACGTAAGCCCGTTCGCCTCTCAGTATGAAGCTCAAAACTATGGCTGTTGGAAAGTATCTTAGAAAGCATTAGTGATAATAACATCAACTATAAAGACTTAATGTTTCGTGAACTTCGACCTGTACAGAAAAACTGTTAGTATTTTGTTGTGCGGGAACTTTCTGCTGTCCTTCCAAAGTAACAAAATGTTGTTTCAAATCCTGAAGTTCTATAGCTGGGTAGCTTGATGACCGAAGGGGTCAAGTCTGCAATTTGAAGGATTTGTATTCGCCCCGCAATGGATGTTGATATGACCATGTTGGATAAGTTGAAGGATTTCAAATGTACTGACCGTTCTTTGCTGTATATATGGCATAAATTCTTGACAGTAGGAATCTAAAGCAGATTTTCGTCAAAGTACATCTTTTTATCTTTGATATTTCTTTCGTGTTCTATATTTTGGTTACCATTATCTCAGCAGCAGAGAATATGTCGAACAAGTCAGGAACACCTTGCTTTGCGTATTAACTATAACGATCTATATAAGCTCGCGCATG
Coding sequences of Glyma.04g088000
>Glyma.04g088000.1 sequence-type=CDS polypeptide=Glyma.04g088000.1.p locus=Glyma.04g088000 ID=Glyma.04g088000.1.Wm82.a2.v1 annot-version=Wm82.a2.v1
ATGAGGTTGAGGGAGGACTTGCCGTGTAAAAACGATGACGTTTGTGAGAAAGAGGAAGTGATGATAGAGAATGATGTAACCGTGGCCCAAAATCATTGGTGTCCCGTCGTGAATGCGGGCTTTTCTTCGCCCAAGAGAGTCGTTGTGGTTGGTTACGCTCTTACCACTAAAAAGATTAAGAGCTTTTTGCAGCCTAAGCTTGAAGGTTTAGCTAGGAACAAGGGAATACTATTCGTGGCTGTTGACCACAATAGGCCTCTTTCAGATCAAGGTCCTTTTGATATTGTCTTGCATAAGTTATCAGGGAAAGAGTGGCGCCAGGTTCTTGAGGATTATAGGCTGTCACATCCGGAAGTTACTGTTCTGGATCCTCCAGATGCCATACAACATTTACGCAACCGGCAGTATATGCTTCAGGCTGTTGCGGATATGAACCTTTCTGATTCCTATGGCACTGTTGGTGTTCCTCGGCAATTAGTTATCAAGAGAGACGCATTAGCCATCCCAGAGTTGGTCAACAAAGCTGGCTTGACTTTACCCCTTGTTGCAAAGCCACTAGTTGCCGATGGAAGTGCAAAGTCCCATGAATTATCCCTTGCTTATGAGCATTTTTCCCTTCAAAATCTTGAACCTCCTCTTGTGCTCCAGGAGTTTGTCAACCATGGAGGTGTTCTCTTCAAGGTTTATATAGTTGGTGATGCTATAAAGGTTGTAAGGCGGTTTTCGTTACCTGATGTTAGCAACTGGGAACTCTCCAAAGATGCTGGTATATATCGCTTTCCAAGGGTTTCTTGTGCTGCAGCTTCTGCGGATGATGCAGATCTGGATCCTACTGTTGCCGAGCTTCCTCCAAGACCTTTACTAGAGAAACTGGCTAAGGAGCTTCGATGGCGATTGGGTCTTCGCCTATTCAACCTGGATATTATCCGTGAGTATGGAACAAGAGATCACTTTTACGTCATTGACATAAACTACTTCCCTGGGTATGGCAAAATGCCAGAATATGAACACATATTTACAGACTTCCTGTTGAGCCTGGGGCAGGGGAATTACAAGAAAAAATAG

>Glyma.04g088000.2 sequence-type=CDS polypeptide=Glyma.04g088000.2.p locus=Glyma.04g088000 ID=Glyma.04g088000.2.Wm82.a2.v1 annot-version=Wm82.a2.v1
ATGAACAAGGGAATACTATTCGTGGCTGTTGACCACAATAGGCCTCTTTCAGATCAAGGTCCTTTTGATATTGTCTTGCATAAGTTATCAGGGAAAGAGTGGCGCCAGGTTCTTGAGGATTATAGGCTGTCACATCCGGAAGTTACTGTTCTGGATCCTCCAGATGCCATACAACATTTACGCAACCGGCAGTATATGCTTCAGGCTGTTGCGGATATGAACCTTTCTGATTCCTATGGCACTGTTGGTGTTCCTCGGCAATTAGTTATCAAGAGAGACGCATTAGCCATCCCAGAGTTGGTCAACAAAGCTGGCTTGACTTTACCCCTTGTTGCAAAGCCACTAGTTGCCGATGGAAGTGCAAAGTCCCATGAATTATCCCTTGCTTATGAGCATTTTTCCCTTCAAAATCTTGAACCTCCTCTTGTGCTCCAGGAGTTTGTCAACCATGGAGGTGTTCTCTTCAAGGTTTATATAGTTGGTGATGCTATAAAGGTTGTAAGGCGGTTTTCGTTACCTGATGTTAGCAACTGGGAACTCTCCAAAGATGCTGGTATATATCGCTTTCCAAGGGTTTCTTGTGCTGCAGCTTCTGCGGATGATGCAGATCTGGATCCTACTGTTGCCGAGCTTCCTCCAAGACCTTTACTAGAGAAACTGGCTAAGGAGCTTCGATGGCGATTGGGTCTTCGCCTATTCAACCTGGATATTATCCGTGAGTATGGAACAAGAGATCACTTTTACGTCATTGACATAAACTACTTCCCTGGGTATGGCAAAATGCCAGAATATGAACACATATTTACAGACTTCCTGTTGAGCCTGGGGCAGGGGAATTACAAGAAAAAATAG
Predicted protein sequences of Glyma.04g088000
>Glyma.04g088000.1.p sequence-type=predicted peptide transcript=Glyma.04g088000.1 locus=Glyma.04g088000 ID=Glyma.04g088000.1.Wm82.a2.v1 annot-version=Wm82.a2.v1
MRLREDLPCKNDDVCEKEEVMIENDVTVAQNHWCPVVNAGFSSPKRVVVVGYALTTKKIKSFLQPKLEGLARNKGILFVAVDHNRPLSDQGPFDIVLHKLSGKEWRQVLEDYRLSHPEVTVLDPPDAIQHLRNRQYMLQAVADMNLSDSYGTVGVPRQLVIKRDALAIPELVNKAGLTLPLVAKPLVADGSAKSHELSLAYEHFSLQNLEPPLVLQEFVNHGGVLFKVYIVGDAIKVVRRFSLPDVSNWELSKDAGIYRFPRVSCAAASADDADLDPTVAELPPRPLLEKLAKELRWRLGLRLFNLDIIREYGTRDHFYVIDINYFPGYGKMPEYEHIFTDFLLSLGQGNYKKK*

>Glyma.04g088000.2.p sequence-type=predicted peptide transcript=Glyma.04g088000.2 locus=Glyma.04g088000 ID=Glyma.04g088000.2.Wm82.a2.v1 annot-version=Wm82.a2.v1
MNKGILFVAVDHNRPLSDQGPFDIVLHKLSGKEWRQVLEDYRLSHPEVTVLDPPDAIQHLRNRQYMLQAVADMNLSDSYGTVGVPRQLVIKRDALAIPELVNKAGLTLPLVAKPLVADGSAKSHELSLAYEHFSLQNLEPPLVLQEFVNHGGVLFKVYIVGDAIKVVRRFSLPDVSNWELSKDAGIYRFPRVSCAAASADDADLDPTVAELPPRPLLEKLAKELRWRLGLRLFNLDIIREYGTRDHFYVIDINYFPGYGKMPEYEHIFTDFLLSLGQGNYKKK*






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