Gene detail

Detail information of GWHGAAZE023164

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	KDP34120.1	0	hypothetical protein JCGZ_07691 [Jatropha curcas]
COG	YP_003321776.1	4E-131	glycine hydroxymethyltransferase
Swissprot	tr\|Q94JQ3\|GLYP3_ARATH	0	Serine hydroxymethyltransferase 3, chloroplastic (Precursor)
trEMBL	tr\|A0A067KPA8\|A0A067KPA8_JATCU	0	Serine hydroxymethyltransferase {ECO:0000256\|RuleBase:RU000585}
TAIR10	AT4G32520.2	0	serine hydroxymethyltransferase 3

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000007	gene	891898	900174	+
GWHAAZE00000007	mRNA	891898	900174	+
GWHAAZE00000007	exon	891898	892105	+
GWHAAZE00000007	exon	892305	892500	+
GWHAAZE00000007	exon	892591	892765	+
GWHAAZE00000007	exon	892863	892980	+
GWHAAZE00000007	exon	893093	893205	+
GWHAAZE00000007	exon	893306	893428	+
GWHAAZE00000007	exon	898525	898629	+
GWHAAZE00000007	exon	898768	898854	+
GWHAAZE00000007	exon	898970	899077	+
GWHAAZE00000007	exon	899729	899801	+
GWHAAZE00000007	exon	899900	900174	+
GWHAAZE00000007	CDS	891898	892105	+
GWHAAZE00000007	CDS	892305	892500	+
GWHAAZE00000007	CDS	892591	892765	+
GWHAAZE00000007	CDS	892863	892980	+
GWHAAZE00000007	CDS	893093	893205	+
GWHAAZE00000007	CDS	893306	893428	+
GWHAAZE00000007	CDS	898525	898629	+
GWHAAZE00000007	CDS	898768	898854	+
GWHAAZE00000007	CDS	898970	899077	+
GWHAAZE00000007	CDS	899729	899801	+
GWHAAZE00000007	CDS	899900	900174	+

Transcript Sequence
>GWHTAAZE023194 ATGCAGGCATGCGGTGGGACTGGAGTAATGGGTTCTCTTCAACAGCCTGTTTGGATCAAAGGATCGAGTTTTCCTCCGAAAGTGTCTTTTAATAATGGTTCCCCACATCAGGTTAAACTCGGTTTGGTTAAGCCGTGTAGATCATCTCAACTTGAGGGCACGGCTGTCACTGGGAGGCCACCCTCTTCTGTGTCGGTTCCAATCGGAGGTAGTGAGAAAAGTTTTGTAGACTATGGATTGAGTGAAGCCGATCCTGAAGTACGTGGAATTATTGACAAAGAAAAGCAACGTCAATTCAGTAGCTTAGAGCTTATTGCCTCGGAGAACTACACATCCCGAGCAGTGATGGAAGCAGTTGGTTCTTGCCTTACAAACAAGTACTCTGAAGGTCTGCCAGGGAAAAGGTACTATGGTGGCAATGAGTACATTGATGAACTGGAACTTCTTTGTCAAAAGAGGGCTTTGGCAGCATTTCACTTAGATGGAAAGAAGTGGGGTGTGAATGTTCAGCCTTTGTCGGGTTCTCCTGCTAATTTTGAAGTTTACACAGCACTTCTTAGTCCTCATGACCGCATAATGGGACTGGATTTGCCCCACGGAGGACACTTGTCTCATGGGTTTATGACTCCTAAGAGACGAGTATCGGGCACTTCTATATATTTTGAGTCTATGCCTTATAGGCTTGATGAAACTACAGGCCTAGTTGATTATGACATGCTTGAGAAAACGGCTAACCTATTTCGCCCAAAACTCATTATTGCTGGTGCTAGTGCTTATGCTCGAGATTTTGACTACCCTCGTATGAGAGAGATTGCAGATTCTGTTGGTGCTTTTCTGATGATGGATATGGCTCACATAAGTGGCCTTGTTGCCGCTTCTGTTCTTGCAAATCCTTTTGAATACTGTGATGTTGTAACGACAACAACACACAAGTCTTTGAGAGGGCCTAGAGGCGGAATGATCTTCTTCAAGACGGATAAAGTTCTGGGTGTTGATTTAGAGTCTGCAATTAACAATGCTGTTTTTCCAGGGTTGCAGGGTGGTCCACACAACCATACGATTGGCGGACTTGCAGTTTGCCTGAAACATGCTCAGTCTCCTGAGTTTAAGGATTATCAGAACAAGGTGGTGTCTAATTGTAGAGCTCTTGCAAGCAGATTGATTGAGCTAGGATACAAATTGGTTTCTGGTGGAAGTGATAATCACTTAGTTCTTGTGGATCTCAGGCCACTGGGGATTGATGGTGCTAGGGTGGAGAAAGTACTCGACATGGCATCCATCACCCTCAACAAAAATTCTGTTCCTGGCGATAAAAGCGCTCTAGTGCCTGGTGGGATACGCATTGGATCGCCTGCAATGACTACCAGGGGATTCACAGAGAAGGAATTTGTGGCAACTGCGGACTTCATACATGAGGGTGTGCAGATTACGCTTGAAGCCAAACAGTCTGTTCCGCGTGCAAAGCTCCAAGAATTCTTGAAATTTGTAGAATCTCCAGATTTCCCTTTGATGGACCGGGTGTCGGACTTGAGGAGGAAAGTGGAGAACTTGACAACTCAGTACCCCATGCCTGGTTTATGA

Network for GWHGAAZE023164

Network category	Network	Top300 PCC genelist
Coexpression Positive	Network	Top300 PCC genelist
Coexpression Negative	Network	Top300 PCC genelist

Functional Module

Module ID	Function Annotation

Protein Structure

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF00464.20	SHMT	80	470	1.90E-193

Protein Sequence

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K00600	glyA, SHMT	Metabolic pathways	map01100
		Biosynthesis of secondary metabolites	map01110
		Microbial metabolism in diverse environments	map01120
		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

Gene Ontology

GO term	Ontology	Name
GO:0019264	biological_process	glycine biosynthetic process from serine
GO:0035999	biological_process	tetrahydrofolate interconversion
GO:0004372	molecular_function	glycine hydroxymethyltransferase activity
GO:0030170	molecular_function	pyridoxal phosphate binding
GO:0003824	molecular_function	catalytic activity

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	28.445
	SRR3591706	second leaf	27.829
	SRR3591707	mature leaf	34.970
	SRR3591708	Shoot apex	32.947
	SRR3591709	Stem	26.195
	SRR3591710	White floral bud	28.050
	SRR3591711	White flower	43.206
	SRR3591712	Green floral bud	39.856
	SRR3591713	Yellow flower	42.572
SRP173429	SRR8316895	Juvenile bud stage	23.001
	SRR8316896	Juvenile bud stage	29.391
	SRR8316897	Juvenile bud stage	15.055
	SRR8316894	Third green stage	11.774
	SRR8316900	Third green stage	38.206
	SRR8316901	Third green stage	33.308
	SRR8316898	Complete white stage	14.062
	SRR8316899	Complete white stage	41.538
	SRR8316903	Complete white stage	17.342
	SRR8316902	Silver flowering stage	17.551
	SRR8316904	Silver flowering stage	23.450
	SRR8316905	Silver flowering stage	12.194
	SRR8316906	Gold flowering stage	41.325
	SRR8316907	Gold flowering stage	42.562
	SRR8316908	Gold flowering stage	45.853
SRP132670	SRR6706286	Control	27.652
	SRR6706287	Light intensity 50%	30.429
	SRR6706288	Light intensity 20%	36.982
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	20.800
	CNS0095593	Slightly white alabastrum(diploid) 2	22.271
	CNS0095594	Slightly white alabastrum(diploid) 3	18.711
	CNS0095595	Whole white alabastrum(diploid) 2	16.903
	CNS0095596	Whole white alabastrum(diploid) 3	18.135
	CNS0095597	Whole white alabastrum(diploid) 4	16.340
	CNS0095598	Silvery flower (diploied) 1	20.304
	CNS0095599	Silvery flower (diploied) 2	21.374
	CNS0095600	Silvery flower (diploied) 3	37.629
	CNS0095601	Golden flower (diploid) 1	16.218
	CNS0095602	Golden flower (diploid) 2	31.724
	CNS0095603	Golden flower (diploid) 3	29.162
	CNS0095604	Slightly white alabastrum(tetraploid) 1	29.338
	CNS0095605	Slightly white alabastrum(tetraploid) 2	22.733
	CNS0095606	Slightly white alabastrum(tetraploid) 3	49.540
	CNS0095607	Whole white alabastrum(tetraploid) 1	11.160
	CNS0095608	Whole white alabastrum(tetraploid) 2	14.055
	CNS0095609	Whole white alabastrum(tetraploid) 3	54.011
	CNS0095610	Silvery flower (tetraploid) 1	59.503
	CNS0095611	Silvery flower (tetraploid) 2	66.501
	CNS0095612	Silvery flower (tetraploid) 3	53.263
	CNS0095613	Golden flower (tetraploid) 1	37.540
	CNS0095614	Golden flower (tetraploid) 2	59.919
	CNS0095615	Golden flower (tetraploid) 3	57.097
CRA001975	CRR073297	Stem 1	34.774
	CRR073298	Stem 2	29.023
	CRR073299	Stem 3	34.147
	CRR073300	Leaf 1	31.987
	CRR073301	Leaf 2	30.109
	CRR073302	Leaf 3	33.300
	CRR073303	Juvenile bud 1	34.429
	CRR073304	Juvenile bud 2	20.585
	CRR073305	Juvenile bud 3	37.656
	CRR073306	Third green 1	8.310
	CRR073307	Third green 2	8.263
	CRR073308	Third green 3	9.729
	CRR073309	Second white 1	21.622
	CRR073310	Second white 2	25.819
	CRR073311	Second white 3	24.889
	CRR073312	Silver flowering 1	22.044
	CRR073313	Silver flowering 2	23.269
	CRR073314	Silver flowering 3	19.223
	CRR073315	Gold flowering 1	43.469
	CRR073316	Gold flowering 2	49.866
	CRR073317	Gold flowering 3	38.081
	CRR073318	Tawny withering 1	23.886
	CRR073319	Tawny withering 2	24.394
	CRR073320	Tawny withering 3	30.632