Gene detail

Detail information of GWHGAAZE026762

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	KEH33671.1	1.1997E-157	squalene/phytoene synthase [Medicago truncatula]
COG	YP_007121895.1	6E-95	phytoene/squalene synthetase
Swissprot	tr\|Q9SSU8\|PSY_DAUCA	8E-157	Phytoene synthase, chloroplastic (Precursor)
trEMBL	tr\|A0A072UW65\|A0A072UW65_MEDTR	4E-158	Squalene/phytoene synthase {ECO:0000313\|EMBL:KEH33671.1}
TAIR10	AT5G17230.3	5E-121	PHYTOENE SYNTHASE

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000008	gene	9759953	9763473	+
GWHAAZE00000008	mRNA	9759953	9763473	+
GWHAAZE00000008	exon	9759953	9760179	+
GWHAAZE00000008	exon	9760795	9760845	+
GWHAAZE00000008	exon	9761990	9762233	+
GWHAAZE00000008	exon	9762487	9762722	+
GWHAAZE00000008	exon	9763176	9763473	+
GWHAAZE00000008	five_prime_UTR	9759953	9760179	+
GWHAAZE00000008	five_prime_UTR	9760795	9760845	+
GWHAAZE00000008	five_prime_UTR	9761990	9762026	+
GWHAAZE00000008	CDS	9762027	9762233	+
GWHAAZE00000008	CDS	9762487	9762722	+
GWHAAZE00000008	CDS	9763176	9763473	+

Transcript Sequence
>GWHTAAZE026796 ATGTCGACGGGGGTGTCGGCGGTGACGAGCGCTGTCGCGGTGGCGGGTTCTCCGGCGATGTCGGCGGAGGAGAGGGTGTACGAAGTGGTGGTGAAACAGGCGGCGCTGGTGAGGGAACAGAGGAAACAGAGGCCATTGGATCTGAGGAGGGCCAAAAGTGTTGATGATGTCACTACTGGGGATCTGTTGAATGTGGCGTATGATAGGTGTGGGGACGTCTGTGCTGAGAACATTACTAATGACACCGGAGAGGAGGAGAGCTGTATGGGCCATATATGAGTTAAATGTAGCTCTATTTATAGATCAAACTGCATTATGGGACTCAGAACAAAGTTTTATTACCAAACAGTGTGGTGCAGAAGAACTGATGAGCTTGTTGATGGACCAAATGCTTCTCACATTACACCCAAGGCGCTCGACCGATGGGAGAAACGGCTAACCGACCTTTTCGAAGGACAACCCTATGATTTATACGATGCTGCTCTATCTCATACAGTCACTACATACCCTGTCGATATACAGCCCTTCAGGGATATGATTGAAGGAATGAGGTTGGATTTGAAAAAATCGAGATACGAGAGCTTTGACGAGCTTTACTTATATTGCTATTATGTTGCCGGGACAGTGGGGCTAATGAGTGTTCCGGTGATGGGGCTTGCACCGGAATCCAAGGCCTCGACAGAGAGTGTTTATAATGCAGCTTTAGCTCTCGGGATCGCTAATCAGCTTACTAACATACTTAGAGACGTCGGAGAAGATGCTAGAAGAGGAAGAATATATCTTCCACAAGAGGAACTCGCGCTTGCAGGCCTGTCGGCCGATGATATATTTAGAGGCCAAGTGACTGATAAGTGGCGAAATTTCATGAAAGGACAAATAAAACGAGCTCGGATGTTCTTCGACGAAGCAGAGAAGGGCGTCTCAGAGCTGAACTCAGCTAGTAGATGGCCCGTGTGGGCATCGTTATTGCTATACCGGCAAATCTTGGACGCGATTGAAGCTAATGACTATAACAACTTCAGTAAGCGCGCTTATGTAGGCAAAGCAAAAAGCTAG

Network for GWHGAAZE026762

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
PF00494.20	SQS_PSY	3	243	2.40E-63

Protein Sequence

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K02291	crtB	Metabolic pathways	map01100
		Biosynthesis of secondary metabolites	map01110
		Carotenoid biosynthesis	map00906

Gene Ontology

GO term	Ontology	Name
GO:0009058	biological_process	biosynthetic process
GO:0006696	biological_process	ergosterol biosynthetic process
GO:0016765	molecular_function	transferase activity, transferring alkyl or aryl (other than methyl) groups
GO:0016740	molecular_function	transferase activity
GO:0004310	molecular_function	farnesyl-diphosphate farnesyltransferase activity
GO:0051996	molecular_function	squalene synthase activity

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	7.441
	SRR3591706	second leaf	84.044
	SRR3591707	mature leaf	53.525
	SRR3591708	Shoot apex	21.085
	SRR3591709	Stem	2.486
	SRR3591710	White floral bud	1.048
	SRR3591711	White flower	0.919
	SRR3591712	Green floral bud	2.715
	SRR3591713	Yellow flower	0.000
SRP173429	SRR8316895	Juvenile bud stage	3.017
	SRR8316896	Juvenile bud stage	3.267
	SRR8316897	Juvenile bud stage	1.844
	SRR8316894	Third green stage	3.118
	SRR8316900	Third green stage	14.338
	SRR8316901	Third green stage	14.835
	SRR8316898	Complete white stage	0.881
	SRR8316899	Complete white stage	4.290
	SRR8316903	Complete white stage	0.843
	SRR8316902	Silver flowering stage	0.000
	SRR8316904	Silver flowering stage	0.348
	SRR8316905	Silver flowering stage	0.249
	SRR8316906	Gold flowering stage	0.198
	SRR8316907	Gold flowering stage	0.962
	SRR8316908	Gold flowering stage	0.882
SRP132670	SRR6706286	Control	20.863
	SRR6706287	Light intensity 50%	22.423
	SRR6706288	Light intensity 20%	24.269
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	4.020
	CNS0095593	Slightly white alabastrum(diploid) 2	5.579
	CNS0095594	Slightly white alabastrum(diploid) 3	3.788
	CNS0095595	Whole white alabastrum(diploid) 2	7.852
	CNS0095596	Whole white alabastrum(diploid) 3	11.233
	CNS0095597	Whole white alabastrum(diploid) 4	6.052
	CNS0095598	Silvery flower (diploied) 1	1.915
	CNS0095599	Silvery flower (diploied) 2	2.702
	CNS0095600	Silvery flower (diploied) 3	0.267
	CNS0095601	Golden flower (diploid) 1	1.033
	CNS0095602	Golden flower (diploid) 2	0.270
	CNS0095603	Golden flower (diploid) 3	0.304
	CNS0095604	Slightly white alabastrum(tetraploid) 1	9.695
	CNS0095605	Slightly white alabastrum(tetraploid) 2	8.820
	CNS0095606	Slightly white alabastrum(tetraploid) 3	13.529
	CNS0095607	Whole white alabastrum(tetraploid) 1	1.450
	CNS0095608	Whole white alabastrum(tetraploid) 2	4.004
	CNS0095609	Whole white alabastrum(tetraploid) 3	15.431
	CNS0095610	Silvery flower (tetraploid) 1	0.214
	CNS0095611	Silvery flower (tetraploid) 2	0.060
	CNS0095612	Silvery flower (tetraploid) 3	0.320
	CNS0095613	Golden flower (tetraploid) 1	0.002
	CNS0095614	Golden flower (tetraploid) 2	0.178
	CNS0095615	Golden flower (tetraploid) 3	0.000
CRA001975	CRR073297	Stem 1	10.437
	CRR073298	Stem 2	10.888
	CRR073299	Stem 3	14.634
	CRR073300	Leaf 1	21.589
	CRR073301	Leaf 2	22.353
	CRR073302	Leaf 3	21.825
	CRR073303	Juvenile bud 1	14.639
	CRR073304	Juvenile bud 2	13.921
	CRR073305	Juvenile bud 3	10.499
	CRR073306	Third green 1	2.369
	CRR073307	Third green 2	0.365
	CRR073308	Third green 3	0.333
	CRR073309	Second white 1	1.258
	CRR073310	Second white 2	0.258
	CRR073311	Second white 3	0.607
	CRR073312	Silver flowering 1	0.143
	CRR073313	Silver flowering 2	0.074
	CRR073314	Silver flowering 3	0.579
	CRR073315	Gold flowering 1	48.082
	CRR073316	Gold flowering 2	60.329
	CRR073317	Gold flowering 3	44.207
	CRR073318	Tawny withering 1	1.218
	CRR073319	Tawny withering 2	2.421
	CRR073320	Tawny withering 3	0.510