Gene detail

Detail information of GWHGAAZE022330

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	XP_004252893.1	0	PREDICTED: lipoyl synthase, chloroplastic [Solanum lycopersicum]
COG	YP_002492509.1	1E-117	lipoyl synthase
Swissprot	tr\|B9RX57\|LISC_RICCO	0	Lipoyl synthase, chloroplastic {ECO:0000255\|HAMAP-Rule:MF_03129} (Precursor)
trEMBL	tr\|M1A084\|M1A084_SOLTU	0	Lipoyl synthase, chloroplastic {ECO:0000256\|HAMAP-Rule:MF_03129}
TAIR10	AT5G08415.1	2E-163	Radical SAM superfamily protein

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000006	gene	70608789	70612586	-
GWHAAZE00000006	mRNA	70608789	70612586	-
GWHAAZE00000006	exon	70612428	70612586	-
GWHAAZE00000006	exon	70611399	70611562	-
GWHAAZE00000006	exon	70610386	70610476	-
GWHAAZE00000006	exon	70610069	70610226	-
GWHAAZE00000006	exon	70609484	70609655	-
GWHAAZE00000006	exon	70609105	70609215	-
GWHAAZE00000006	exon	70608789	70608866	-
GWHAAZE00000006	CDS	70612428	70612586	-
GWHAAZE00000006	CDS	70611399	70611562	-
GWHAAZE00000006	CDS	70610386	70610476	-
GWHAAZE00000006	CDS	70610069	70610226	-
GWHAAZE00000006	CDS	70609484	70609655	-
GWHAAZE00000006	CDS	70609105	70609215	-
GWHAAZE00000006	CDS	70608789	70608866	-

Transcript Sequence
>GWHTAAZE022360 ATGGGGCCATATACGGGTAGAGATCCGAATGTGAAGAAGCCGGAGTGGCTAAGGCAGAAAGCTCCCCAAGGAGAAAAGTATCAAGTGGTCAAGGAGTCCTTGTCTCGCCTTAAGCTCAACACTGTTTGCGAGGAGGCTCAATGCCCTAATATTGGAGAATGTTGGAATGGAGGTGGGGATGGTATTGCAACCGCAACCATCATGCTTCTTGGGGATACCTGCACCCGTGGCTGCAGATTTTGTGCTGTGAAAACTAGCAGAAACCCTGCACCCCCTGATCCTATGGAACCACAGAACACTGCTAAGGCTATCACTAGTTGGGGTGTGGATTACATTGTTCTAACCAGTGTTGATCGGGATGATCTACCTGATGGTGGTAGTGGCCATTTTGCTGAAACTGTTAAAGCTATGAAGCAACTAAAACCCGACATTATGGTTGAGTGTTTGACTTCTGATTTTCGGGGTGACTTAAATGCTGTATCGACTCTGGTACACTCAGGATTAGATGTTTTTGCCCACAACATTGAGACTGTGAAACGACTCCAGCGCATCGTAAGAGATCCCCGGGCTGGGTATGAGCAAAGCATGTCGGTTTTGAAGCATGCAAAGGTGAGTAAGGCAGGTATGATAACAAAATCTTCTATAATGTTGGGACTTGGAGAATCTGATGATGAACTGAAGGAAGCCATGGCTGATTTAAGGGCCATAGATGTTGATATTTTGACACTTGGGCAGTATTTACAGCCTACTCCTTTACACTTAACCGTCAAAGAGTACGTCACGCCTGAGAAATTTGCCTTCTGGAAAGATTACGGAGAGTCTATTGGCTTTCGCTATGTAGCAAGTGGACCCCTGGTTCGTTCCTCGTATAGGGCAGGTGAGCTCTTTGTTAAGACCATGGTGAAAGAGAGTGCCAGAAACAACTACAGCTAG

Network for GWHGAAZE022330

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
PF16881.6	LIAS_N	11	48	2.40E-09
PF04055.22	Radical_SAM	72	232	2.70E-15

Protein Sequence

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K03644	lipA, LIAS, LIP1, LIP5	Metabolic pathways	map01100
K03644	lipA, LIAS, LIP1, LIP5	Lipoic acid metabolism	map00785

Gene Ontology

GO term	Ontology	Name
GO:0009107	biological_process	lipoate biosynthetic process
GO:0009507	cellular_component	chloroplast
GO:0016992	molecular_function	lipoate synthase activity
GO:0051539	molecular_function	4 iron, 4 sulfur cluster binding
GO:0003824	molecular_function	catalytic activity
GO:0051536	molecular_function	iron-sulfur cluster binding

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	17.850
	SRR3591706	second leaf	17.684
	SRR3591707	mature leaf	7.485
	SRR3591708	Shoot apex	16.965
	SRR3591709	Stem	14.859
	SRR3591710	White floral bud	22.073
	SRR3591711	White flower	23.657
	SRR3591712	Green floral bud	27.914
	SRR3591713	Yellow flower	19.225
SRP173429	SRR8316895	Juvenile bud stage	15.648
	SRR8316896	Juvenile bud stage	19.838
	SRR8316897	Juvenile bud stage	7.489
	SRR8316894	Third green stage	7.101
	SRR8316900	Third green stage	25.184
	SRR8316901	Third green stage	26.594
	SRR8316898	Complete white stage	9.686
	SRR8316899	Complete white stage	27.362
	SRR8316903	Complete white stage	14.837
	SRR8316902	Silver flowering stage	9.409
	SRR8316904	Silver flowering stage	13.972
	SRR8316905	Silver flowering stage	5.809
	SRR8316906	Gold flowering stage	26.364
	SRR8316907	Gold flowering stage	26.877
	SRR8316908	Gold flowering stage	27.629
SRP132670	SRR6706286	Control	17.286
	SRR6706287	Light intensity 50%	21.588
	SRR6706288	Light intensity 20%	24.074
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	16.708
	CNS0095593	Slightly white alabastrum(diploid) 2	17.537
	CNS0095594	Slightly white alabastrum(diploid) 3	11.923
	CNS0095595	Whole white alabastrum(diploid) 2	14.887
	CNS0095596	Whole white alabastrum(diploid) 3	15.671
	CNS0095597	Whole white alabastrum(diploid) 4	12.935
	CNS0095598	Silvery flower (diploied) 1	12.011
	CNS0095599	Silvery flower (diploied) 2	12.470
	CNS0095600	Silvery flower (diploied) 3	16.476
	CNS0095601	Golden flower (diploid) 1	8.903
	CNS0095602	Golden flower (diploid) 2	14.980
	CNS0095603	Golden flower (diploid) 3	13.163
	CNS0095604	Slightly white alabastrum(tetraploid) 1	19.560
	CNS0095605	Slightly white alabastrum(tetraploid) 2	19.086
	CNS0095606	Slightly white alabastrum(tetraploid) 3	26.043
	CNS0095607	Whole white alabastrum(tetraploid) 1	9.262
	CNS0095608	Whole white alabastrum(tetraploid) 2	14.272
	CNS0095609	Whole white alabastrum(tetraploid) 3	22.449
	CNS0095610	Silvery flower (tetraploid) 1	18.042
	CNS0095611	Silvery flower (tetraploid) 2	14.799
	CNS0095612	Silvery flower (tetraploid) 3	29.919
	CNS0095613	Golden flower (tetraploid) 1	15.731
	CNS0095614	Golden flower (tetraploid) 2	15.502
	CNS0095615	Golden flower (tetraploid) 3	7.343
CRA001975	CRR073297	Stem 1	15.830
	CRR073298	Stem 2	16.074
	CRR073299	Stem 3	20.086
	CRR073300	Leaf 1	24.305
	CRR073301	Leaf 2	20.019
	CRR073302	Leaf 3	17.749
	CRR073303	Juvenile bud 1	17.878
	CRR073304	Juvenile bud 2	21.059
	CRR073305	Juvenile bud 3	25.099
	CRR073306	Third green 1	10.270
	CRR073307	Third green 2	8.558
	CRR073308	Third green 3	11.313
	CRR073309	Second white 1	14.246
	CRR073310	Second white 2	16.936
	CRR073311	Second white 3	16.237
	CRR073312	Silver flowering 1	16.074
	CRR073313	Silver flowering 2	13.709
	CRR073314	Silver flowering 3	13.342
	CRR073315	Gold flowering 1	12.096
	CRR073316	Gold flowering 2	19.935
	CRR073317	Gold flowering 3	11.390
	CRR073318	Tawny withering 1	18.082
	CRR073319	Tawny withering 2	15.490
	CRR073320	Tawny withering 3	23.070