Gene detail

Detail information of GWHGAAZE029640

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	XP_002266312.1	0	PREDICTED: serine hydroxymethyltransferase 7-like [Vitis vinifera]
COG	YP_003826403.1	4E-115	serine hydroxymethyltransferase
Swissprot	tr\|Q84WV0\|GLYC7_ARATH	0	Serine hydroxymethyltransferase 7
trEMBL	tr\|F6H906\|F6H906_VITVI	0	Serine hydroxymethyltransferase {ECO:0000256\|RuleBase:RU000585}
TAIR10	AT1G36370.1	0	serine hydroxymethyltransferase 7

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000009	gene	30381457	30386870	+
GWHAAZE00000009	mRNA	30381457	30386870	+
GWHAAZE00000009	exon	30381457	30382473	+
GWHAAZE00000009	exon	30383460	30383865	+
GWHAAZE00000009	exon	30386257	30386358	+
GWHAAZE00000009	exon	30386647	30386870	+
GWHAAZE00000009	CDS	30381457	30382473	+
GWHAAZE00000009	CDS	30383460	30383865	+
GWHAAZE00000009	CDS	30386257	30386358	+
GWHAAZE00000009	CDS	30386647	30386870	+

Transcript Sequence
>GWHTAAZE029674 ATGGATTTGACGCAATCGCAATCGAACGTCGCCTTAGGGTTTCTGTCTCACGGGAGCCATGCGGACTCTTCGATTTCGTTCAAAATTGATTCGAGCTCCCGTGATTCTTCTCTCACGGCTCCGCCAGTTCCGCTCCAATTGATGGAGCCGGTGAGGGATAATCACCGTGAGAATGATAAGGAGGAGAGTGAGAGTGGGGGAGATGAGAGAGAGGTGGAGGAGTTTCGGATTTTAGGGCATTCGATGTGTTTGAAGAGGCGAAGGGACTGCGAGTCCTCGTCTTCTTCATCCTCGTCAAAACGAGCTTCTTCGATCGAGCCACAAGGTCTCGAATCGAGGCGGAGCGCTGTCCGTGCATGGGGGAACCAGCCGCTGAGTGTTGCGGATCCTGATATTTTCGAGATTATGGAGAAGGAGAAACAGAGGCAGTATAAAGGGATTGAGTTGATTGCTTCTGAGAATTTCGTTTGCCAAGCAGTAATGGAAGCTCTTGGAAGCCATTTGACAAATAAGTATTCTGAAGGGATGCCTGGTGCTAGGTATTATGGTGGAAATCAGTACATTGATGAGATTGAATTTCTCTGTTGTGAGCGTGCTTTGGCTGCTTTCGATCTTGATTCGGAGAATTGGGGTGTGAATGTTCAACCATATTCTTGTACATCAGCAAATTTCGCTGTTTACACTGGTCTACTATTGCCTGGGGATAGGATAATGGGATTGGACACCCCTTGTGGTGGAAACACTAGTCATGGGTACTATACCCCGAATGGAAGGAAGGTTTCGGGGGCTTCAATTTTCTTTGAGAGTCTCCCATATAAGGTGAATCCGCAGACGGGTTATATTGATTACGATAAGCTTGAGGAGAGGGCACTTGATTTTCGCCCCAAGATACTTATTTGTGGTGGGAGCTCATATCCTAGAGAGTGGGATTATGGGAGGTTTAGACAGATTGCTGACAAGTGTGGGGCAGTGTTAATGTGTGATATGGCTCAAATCAGTGGCCTTGTTGTTGCTAAGGAGTGTGTGAACCCTTTCGAGTTCTGTGACATCGTTACCTCAACAACTCACAAAAGTCTTAGAGGTCCTAGGGGAGGTATTATTTTCTATAGAAAGGGTTCAAAGCCGAAGAAGAGAGCTATGCTTTTGAATCAAGGTGATGGTAGTGACAAGTATGACTTTGAGGAGAAGATAAACTTTGCTGTTTTTCCGGCACTGCAAGGAGGGCCACATAATAATCACATTGCGGCCCTTGCGGTAGCCTTGAAACAAGTTGCCACTCAAGAGTACAAGGTGTATATGCAACAGGTGAAGAAAAACGCTCAGGCTTTAGTGTCTGCTTTATTGAGAAGAAATTGTAGGCTGGTAACAGGAGGCACTGACAATCATTTAATACTTTGGGATCTCCGGAATCTTGGATTAACGGGTAAGAATTTCGAGAAGGTCTGTGAGACGTGTCACATTACTCTCAATAAAATTGCAATATTTGACGACAATGGCACTATTATACCCGGAGGTGTGAGAATAGGTACTCCTGCTATGACGTCTCGAGGTTGTCTAGAAGCCGATTTCGAGACAATGGCCGACTTTCTTCTTCGAGCCGCACAGATCACAAATATGGTGCAGAGGGAACACGGGAAGTTACAGAAGACCTTCATGAAGGGTCTTCAGAACAACAAAGACATCATTGAACTTCGTACTCGAGTTGAAAATTTTGCTACTCGATTTGCAATGCCGGGGCTTGACATATAA

Network for GWHGAAZE029640

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	126	529	3.70E-169

Protein Sequence

Gene family

Gene family	subfamily
Ubiquitin Family	DWD

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:0003824	molecular_function	catalytic activity
GO:0004372	molecular_function	glycine hydroxymethyltransferase activity
GO:0030170	molecular_function	pyridoxal phosphate binding

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	43.542
	SRR3591706	second leaf	54.992
	SRR3591707	mature leaf	58.131
	SRR3591708	Shoot apex	34.624
	SRR3591709	Stem	61.126
	SRR3591710	White floral bud	46.804
	SRR3591711	White flower	68.881
	SRR3591712	Green floral bud	39.626
	SRR3591713	Yellow flower	52.706
SRP173429	SRR8316895	Juvenile bud stage	14.144
	SRR8316896	Juvenile bud stage	20.325
	SRR8316897	Juvenile bud stage	9.678
	SRR8316894	Third green stage	9.723
	SRR8316900	Third green stage	28.467
	SRR8316901	Third green stage	24.308
	SRR8316898	Complete white stage	14.526
	SRR8316899	Complete white stage	41.110
	SRR8316903	Complete white stage	27.679
	SRR8316902	Silver flowering stage	25.426
	SRR8316904	Silver flowering stage	29.940
	SRR8316905	Silver flowering stage	16.143
	SRR8316906	Gold flowering stage	43.146
	SRR8316907	Gold flowering stage	36.373
	SRR8316908	Gold flowering stage	51.188
SRP132670	SRR6706286	Control	42.180
	SRR6706287	Light intensity 50%	41.367
	SRR6706288	Light intensity 20%	43.952
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	17.292
	CNS0095593	Slightly white alabastrum(diploid) 2	18.533
	CNS0095594	Slightly white alabastrum(diploid) 3	14.993
	CNS0095595	Whole white alabastrum(diploid) 2	14.953
	CNS0095596	Whole white alabastrum(diploid) 3	15.242
	CNS0095597	Whole white alabastrum(diploid) 4	15.728
	CNS0095598	Silvery flower (diploied) 1	29.678
	CNS0095599	Silvery flower (diploied) 2	24.544
	CNS0095600	Silvery flower (diploied) 3	49.888
	CNS0095601	Golden flower (diploid) 1	22.209
	CNS0095602	Golden flower (diploid) 2	41.413
	CNS0095603	Golden flower (diploid) 3	41.043
	CNS0095604	Slightly white alabastrum(tetraploid) 1	25.719
	CNS0095605	Slightly white alabastrum(tetraploid) 2	22.999
	CNS0095606	Slightly white alabastrum(tetraploid) 3	51.194
	CNS0095607	Whole white alabastrum(tetraploid) 1	18.322
	CNS0095608	Whole white alabastrum(tetraploid) 2	19.416
	CNS0095609	Whole white alabastrum(tetraploid) 3	36.725
	CNS0095610	Silvery flower (tetraploid) 1	53.614
	CNS0095611	Silvery flower (tetraploid) 2	51.966
	CNS0095612	Silvery flower (tetraploid) 3	67.395
	CNS0095613	Golden flower (tetraploid) 1	23.520
	CNS0095614	Golden flower (tetraploid) 2	36.417
	CNS0095615	Golden flower (tetraploid) 3	35.964
CRA001975	CRR073297	Stem 1	24.798
	CRR073298	Stem 2	23.786
	CRR073299	Stem 3	23.298
	CRR073300	Leaf 1	32.679
	CRR073301	Leaf 2	25.387
	CRR073302	Leaf 3	24.316
	CRR073303	Juvenile bud 1	28.722
	CRR073304	Juvenile bud 2	21.835
	CRR073305	Juvenile bud 3	34.541
	CRR073306	Third green 1	30.656
	CRR073307	Third green 2	28.775
	CRR073308	Third green 3	28.384
	CRR073309	Second white 1	47.556
	CRR073310	Second white 2	34.815
	CRR073311	Second white 3	59.794
	CRR073312	Silver flowering 1	38.617
	CRR073313	Silver flowering 2	37.232
	CRR073314	Silver flowering 3	38.893
	CRR073315	Gold flowering 1	23.085
	CRR073316	Gold flowering 2	32.323
	CRR073317	Gold flowering 3	24.647
	CRR073318	Tawny withering 1	32.864
	CRR073319	Tawny withering 2	34.984
	CRR073320	Tawny withering 3	30.764