Gene detail

Detail information of GWHGAAZE033800

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	XP_008457222.1	0	PREDICTED: serine hydroxymethyltransferase 4 [Cucumis melo]
COG	YP_003997797.1	9E-129	glycine hydroxymethyltransferase
Swissprot	tr\|O23254\|GLYC4_ARATH	0	Serine hydroxymethyltransferase 4
trEMBL	tr\|A0A0A0LKC8\|A0A0A0LKC8_CUCSA	0	Serine hydroxymethyltransferase {ECO:0000313\|EMBL:KGN61489.1}
TAIR10	AT4G13930.1	0	serine hydroxymethyltransferase 4

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000139	gene	113629	118095	+
GWHAAZE00000139	mRNA	113629	118095	+
GWHAAZE00000139	exon	113629	113996	+
GWHAAZE00000139	exon	114899	115208	+
GWHAAZE00000139	exon	116341	116731	+
GWHAAZE00000139	exon	116817	116918	+
GWHAAZE00000139	exon	117851	118095	+
GWHAAZE00000139	CDS	113629	113996	+
GWHAAZE00000139	CDS	114899	115208	+
GWHAAZE00000139	CDS	116341	116731	+
GWHAAZE00000139	CDS	116817	116918	+
GWHAAZE00000139	CDS	117851	118095	+

Transcript Sequence
>GWHTAAZE033840 ATGGACCCCGTAAATGTGTGGGGAAACACTCCTCTGGACACCGTGGACCCAGAAATCTTCGACCTAATTGAGAAGGAAAAGAGGAGGCAGTGCCGGGGAATCGAACTCATAGCCTCGGAGAACTTCACGTCCTTCGCGGTTATCGAGGCCCTCGGCAGCCCCTTGACGAACAAATACTCCGAGGGGATGCCCGGCAACAGGTACTATGGTGGCAACGAGTTTATTGACGAGATCGAGAACTTGTGCAGGAGCAGGGCTTTGAAAACTTACAGATTGGATCCGGCCAAATGGGGGGTCAATGTCCAGCCTTATTCAGGTAGTCCGGCCAATTTCGCGGCCTACACCGCAGTTCTTAATCCTCACGACAGGATCATGGGGTTGGATTTGCCATCTGGTGGTCATTTGACTCACGGGTACTACACCTCAGGTGGAAAGAAGATATCGGCTACCTCAATTTACTTTGAGAGCTTGCCCTATAAGGTGGATTCAACAACCGGTTACATTGCTTATGATAAGCTTGAGGAGAAGGCCTTGGATTTTAGGCCTAAGTTGATCATTTGTGGAGGCAGTGCTTATCCTAGAGATTGGGATTACAAGAGGCTCCGTGCCATTGCCGACAAGTGCGGTGCTCTTTTGCTTTGTGACATGGCCCATATTAGTGGCCTTGTTGCAGCTCAGGAAGCTGCAGATCCCTTTGAGTACTGCGATTTGGTCACAACCACCACCCACAAGAGCTTGAGGGGTCCTAGGGCTGGTATGATTTTCTACAGGAAGGGACCTAAACCAGCAAAGAAGGGACAGCCAGAAGATGCGGTTTATGACTTTGAAGACAAGATCAACTTTGCTGTGTTCCCAGCGCTCCAGGGTGGTCCACACAACCACCAGATCGGTGCTCTTGCTGTTGCCCTTAAACAGGCCATGTCCCCTGGGTTCAAGGCCTATGCTAAGCAAGTTAAAGCCAATGCTGTTGCCCTTGGAAACTACTTGATGAACAAGGGTTACAAGCTTGTTACCGATGGAACTGAGAACCATCTTGTTCTTTGGGATCTTCGCCCTCTTGGATTGACCGGCAATAAGGTTGAGAAGCTTTGTGATCTTTGCAACATCACCGTGAACAAGAATGCTGTGTTCGGTGACAGCAGTGCCTTGGCCCCTGGAGGGGTTAGAATTGGTACCCCGGCCATGACCTCAAGGGGTTTGCTTGAGAAGGACTTCGAGCAGATTGCCGAGTTCCTCCACAGAGCTGTGACCGTCACCTTGAAAATCCAGAAGGAATATGGTAAGCTATTGAAGGACTTCAACAAGGGTCTAGTGAACAACAAGGACATTGAGGAACTCAAGGCTGACGTCGAGAAGTTCTCTGCATCTTACGACATGCCCGGGTTCAACATGTCCGCAATGAAGTACAAGGACTAG

Network for GWHGAAZE033800

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	12	411	2.30E-190

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: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	476.577
	SRR3591706	second leaf	297.103
	SRR3591707	mature leaf	129.661
	SRR3591708	Shoot apex	246.773
	SRR3591709	Stem	1083.690
	SRR3591710	White floral bud	202.031
	SRR3591711	White flower	207.882
	SRR3591712	Green floral bud	399.816
	SRR3591713	Yellow flower	309.130
SRP173429	SRR8316895	Juvenile bud stage	275.774
	SRR8316896	Juvenile bud stage	275.267
	SRR8316897	Juvenile bud stage	116.667
	SRR8316894	Third green stage	106.130
	SRR8316900	Third green stage	376.125
	SRR8316901	Third green stage	368.728
	SRR8316898	Complete white stage	106.338
	SRR8316899	Complete white stage	319.789
	SRR8316903	Complete white stage	125.068
	SRR8316902	Silver flowering stage	103.177
	SRR8316904	Silver flowering stage	122.297
	SRR8316905	Silver flowering stage	60.046
	SRR8316906	Gold flowering stage	212.057
	SRR8316907	Gold flowering stage	213.799
	SRR8316908	Gold flowering stage	340.011
SRP132670	SRR6706286	Control	350.645
	SRR6706287	Light intensity 50%	403.011
	SRR6706288	Light intensity 20%	463.972
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	213.447
	CNS0095593	Slightly white alabastrum(diploid) 2	251.009
	CNS0095594	Slightly white alabastrum(diploid) 3	194.055
	CNS0095595	Whole white alabastrum(diploid) 2	222.554
	CNS0095596	Whole white alabastrum(diploid) 3	236.467
	CNS0095597	Whole white alabastrum(diploid) 4	208.419
	CNS0095598	Silvery flower (diploied) 1	99.702
	CNS0095599	Silvery flower (diploied) 2	112.242
	CNS0095600	Silvery flower (diploied) 3	112.673
	CNS0095601	Golden flower (diploid) 1	73.016
	CNS0095602	Golden flower (diploid) 2	131.562
	CNS0095603	Golden flower (diploid) 3	127.570
	CNS0095604	Slightly white alabastrum(tetraploid) 1	250.441
	CNS0095605	Slightly white alabastrum(tetraploid) 2	207.707
	CNS0095606	Slightly white alabastrum(tetraploid) 3	390.526
	CNS0095607	Whole white alabastrum(tetraploid) 1	167.359
	CNS0095608	Whole white alabastrum(tetraploid) 2	171.950
	CNS0095609	Whole white alabastrum(tetraploid) 3	335.049
	CNS0095610	Silvery flower (tetraploid) 1	93.813
	CNS0095611	Silvery flower (tetraploid) 2	72.395
	CNS0095612	Silvery flower (tetraploid) 3	96.739
	CNS0095613	Golden flower (tetraploid) 1	124.406
	CNS0095614	Golden flower (tetraploid) 2	134.032
	CNS0095615	Golden flower (tetraploid) 3	54.601
CRA001975	CRR073297	Stem 1	393.956
	CRR073298	Stem 2	332.151
	CRR073299	Stem 3	456.116
	CRR073300	Leaf 1	381.237
	CRR073301	Leaf 2	364.091
	CRR073302	Leaf 3	484.426
	CRR073303	Juvenile bud 1	420.916
	CRR073304	Juvenile bud 2	484.981
	CRR073305	Juvenile bud 3	368.799
	CRR073306	Third green 1	348.900
	CRR073307	Third green 2	276.976
	CRR073308	Third green 3	261.509
	CRR073309	Second white 1	241.661
	CRR073310	Second white 2	204.002
	CRR073311	Second white 3	193.792
	CRR073312	Silver flowering 1	451.076
	CRR073313	Silver flowering 2	632.687
	CRR073314	Silver flowering 3	568.876
	CRR073315	Gold flowering 1	152.811
	CRR073316	Gold flowering 2	159.891
	CRR073317	Gold flowering 3	167.380
	CRR073318	Tawny withering 1	342.513
	CRR073319	Tawny withering 2	245.195
	CRR073320	Tawny withering 3	482.034