Gene detail

Gene detail information of Glyur000413s00015478.1

Functional Annotation

Database	Orthologs	E value	Annotation
TAIR	AT4G32520.2	0	serine hydroxymethyltransferase 3
NR	NP_001238335.1	0	serine hydroxymethyltransferase 4 [Glycine max]
COG	YP_007273081.1	2.00E-122	serine hydroxymethyltransferase [Tepidanaerobacter acetatoxydans Re1]
Swissprot	tr\|Q94JQ3\|GLYP3_ARATH	0	Serine hydroxymethyltransferase 3, chloroplastic (Precursor)
trEMBL	tr\|C6ZJY9\|C6ZJY9_SOYBN	0	Serine hydroxymethyltransferase {ECO:0000256\|RuleBase:RU000585}

Sequence

Transcript Sequence

>Glyur000413s00015478.1
CTAATAAGTCTCTTATATATAGCACTTTTACGAAAATACCCAACCGATACAACAACACGAGATTCGTGCTATTTATGTATCTGTGCGTGTAGTTCAAGTCGACACCACACGNGTAGGTTGCGCGCCGCCGCTAGTGCCCCTCTCCACTCACTCGTCTCTCTGTTCTCGTTTTCGTCTCCACAAAGCTATGTCCTAACTACACACCAAAACCCTAATTTCTTCTATTCACTGCCGTCAAAACAACCTCTCTCGCCGTCGCCGGAGAGTGTCGCCTTAGACCATACGTAACGACTGCAGCTCAGTCCTTGGAGGGGTTATAACACTGATTATTCNTGAATTCACAAGACAAGGATGCCGACATGTGCTGGAGTTGCAATGATGGGTTCTTTGCAGCAACCTGTTTGGACTAAGTGGCAGAATTTCACTTATAAAGGGTATACCNGTCATGGATTTATGCCTCAAGTAAATTTCTATAATGTCAAGCCATGCAAAGCATCTCATGTTGAAGGANGTTTAGTCACTGGGAAGCCATCATCTGTGTCTTTCTCTGTGCCTGNAATTGGAGGTGATGGAAGTAGCTTCCTGGACTATGGCTTGAGTGAAGCTGATCCTGATGTCCATGCTATTATTGACAAGGAAAAGGACCGTCAATTTAAAAGTCTTGAGCTTATTGCTTCTGAGAATTTTACATCTAGAGCAGTCATGGAAGCNGTTGGTTCATGCCTCACAAATAAGTACTCAGAAGGACTACCGGGTAAAAGGTACTATGGTGGCAATGAGTACATTGATGAGCTTGAAACTCTATGTCAAGAAAGGGCGCTGGCTGCATTTCATGTAGATGGGAAAAAGTGGGGTGTAAATGTTCAACCATTATCTGGTTCCCCAGCTAATTTTGCAGTATACACTGCAATTCTTAAACCACATGATCGAATAATGGGTTTGGATTTGCCTCATGGGGGACATTTGTCTCATGGATTCATGACACCTAAAAGACGCGTATCAGCCACATCAATTTATTTTGAATCTATGCCTTATCGACTTGATGAATCAACAGGTCTTATTGATTATGATATGCTGGAGAGAACTGCTAATCTCTTCCGACCAAAACTCATTATTGCTGGTGCTAGTGCTTATCCTCGAGACATTGATTATCCTCGCATGAGAAAACTAATTACATCTTTTATGCAAGGGAAGATTGCAGATCAAGTAGGTGCTTTTCTTATGATGGATATGGCTCACATAAGTGGGCTCGTTGCTGCATCTGTGCTTGCTAATCCCTTTGAGTTTTGTGATATTGTGACCACCACAACCCACAAGTCCCTGAGAGGTCCTAGAGGTGGNATGATATTCTTCAAGAAAGATTCTGTGCATGGGGTTGATCTGGAGTCTGCCATTAACAATGCCGTTTTTCCTGGTCTACAGGGGGGTCCTCATAACCACACAATTGGAGGACTAGCAGTTTGCTTGAAGCATGCCCAGTCTCCAGAATTTAAAATTTACCAAAACCAGGTGGTTGCTAACAGTAGAGCTCTTGCTAACCGATTAACTGAGCACGGATATAAACTGGTTTCTGGCGGTAGTGATAATCACCTGGTTCTTGTTGATCTGAGGCCATCGAGTGCCCTAGTTCCGGGAGGCATTCGCATTGGGTCACCTGCAATGACCACAAGAGGACTTGGTGAGAAAGAATTTGCACTTATTGCAGACTTCATTCACGAAGGTGTGCAGATAAGTCTTGAAGCCAAGAGCTTGGCCCCAGGAACTAAGCTCCAAGATTTTATGAACTTTGTATTATCTCCTGAATTTCCTTTGGTAGATAAGGTTTCAGAGTTGCGTAGGAAAGTTGAAGCTCTTACTACTCAGTATCCTATTCCTGGAGTTTAA

Protein Sequence

Location information (JBrowse)

Scaffold	Start	End	Strand
Scaffold00413	131456	135937	+

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	Enzyme ID	pathway	mapID
K00600	glyA, SHMT	EC:2.1.2.1	Carbon metabolism	map01200
			Biosynthesis of amino acids	map01230
			Glyoxylate and dicarboxylate metabolism	map00630
			Methane metabolism	map00680
			Glycine, serine and threonine metabolism	map00260
			Cyanoamino acid metabolism	map00460
			One carbon pool by folate	map00670
			Antifolate resistance	map01523

Gene Ontology

biological_process

GO:0006544 glycine metabolic process

GO:0006563 L-serine metabolic process

molecular_function

GO:0003824 catalytic activity

GO:0004372 glycine hydroxymethyltransferase activity

GO:0030170 pyridoxal phosphate binding

Pfam domain

Protein	Pfam accession	Pfam name	Alignment start	Alignment end	E-value
Glyur000413s00015478.1	PF00464.14	SHMT	82	421	3.00E-162
Glyur000413s00015478.1	PF00464.14	SHMT	423	454	2.10E-06

Expression pattern

SRP053019

SRA Experiment	Description	TPM
SRR1783599	control	28.619
SRR1783600	control	28.383
SRR1783602	moderate drought stress	27.708
SRR1811619	moderate drought stress	27.758

DRP000996

SRA Experiment	Description	TPM
DRR006519	Root Summer glycyrrhizin high producing strain	47.655
DRR006520	Root Summer glycyrrhizin high producing strain	47.501
DRR006521	Root Winter glycyrrhizin high producing strain	26.534
DRR006522	Root Winter glycyrrhizin high producing strain	25.957
DRR006523	Root Summer glycyrrhizin low producing strain	40.284
DRR006524	Root Summer glycyrrhizin low producing strain	40.126
DRR006525	Leaf Summer glycyrrhizin high producing strain	43.805
DRR006526	Leaf Summer glycyrrhizin high producing strain	44.095

SRP065514

SRA Experiment	Description	TPM
SRR2867873	Salt Stress (root)	51.093
SRR2868004	Drought Stress (root)	47.926
SRR2967015	Control (root)	40.343

SRP215420

SRA Experiment	Description	TPM
SRR9715738	Leaf	60.107
SRR9715740	Leaf	64.744
SRR9715741	Leaf	72.086
SRR9715739	Root	32.406
SRR9715742	Root	49.666
SRR9715743	Root	49.057

SRP188776

SRA Experiment	Description	TPM
SRR8749027	MeJA induced 9h	46.423
SRR8749028	MeJA induced 9h	37.052
SRR8749029	MeJA induced 9h	27.720
SRR8749030	Uninduced	17.947
SRR8749031	Uninduced	8.485
SRR8749032	Uninduced	15.423

SRP175571

SRA Experiment	Description	TPM
SRR8400026	NaCl treatment - Root	53.966
SRR8400027	Control - Root	53.072