Gene detail

Detail information of GWHGAAZE002039

Functional Annotation

Database	Orthologs	Annotation
Nr	XP_006348963.1	PREDICTED: vacuolar protein sorting-associated protein 16 homolog [Solanum tuberosum]
Swissprot	tr\|Q93VQ0\|VCL1_ARATH	Protein VACUOLELESS1
trEMBL	tr\|K4CGF5\|K4CGF5_SOLLC	Uncharacterized protein {ECO:0000313\|EnsemblPlants:Solyc07g056220.2.1}
TAIR10	AT2G38020.1	vacuoleless1 (VCL1)

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000001	gene	67702193	67715359	+
GWHAAZE00000001	mRNA	67702193	67715359	+
GWHAAZE00000001	exon	67702193	67702527	+
GWHAAZE00000001	exon	67703004	67703445	+
GWHAAZE00000001	exon	67705121	67705411	+
GWHAAZE00000001	exon	67706231	67706370	+
GWHAAZE00000001	exon	67708890	67708995	+
GWHAAZE00000001	exon	67709106	67709198	+
GWHAAZE00000001	exon	67709727	67709816	+
GWHAAZE00000001	exon	67709927	67710040	+
GWHAAZE00000001	exon	67710136	67710243	+
GWHAAZE00000001	exon	67710666	67710739	+
GWHAAZE00000001	exon	67710868	67710922	+
GWHAAZE00000001	exon	67711761	67711942	+
GWHAAZE00000001	exon	67713049	67713178	+
GWHAAZE00000001	exon	67713595	67713697	+
GWHAAZE00000001	exon	67715002	67715099	+
GWHAAZE00000001	exon	67715204	67715359	+
GWHAAZE00000001	CDS	67702193	67702527	+
GWHAAZE00000001	CDS	67703004	67703445	+
GWHAAZE00000001	CDS	67705121	67705411	+
GWHAAZE00000001	CDS	67706231	67706370	+
GWHAAZE00000001	CDS	67708890	67708995	+
GWHAAZE00000001	CDS	67709106	67709198	+
GWHAAZE00000001	CDS	67709727	67709816	+
GWHAAZE00000001	CDS	67709927	67710040	+
GWHAAZE00000001	CDS	67710136	67710243	+
GWHAAZE00000001	CDS	67710666	67710739	+
GWHAAZE00000001	CDS	67710868	67710922	+
GWHAAZE00000001	CDS	67711761	67711942	+
GWHAAZE00000001	CDS	67713049	67713178	+
GWHAAZE00000001	CDS	67713595	67713697	+
GWHAAZE00000001	CDS	67715002	67715099	+
GWHAAZE00000001	CDS	67715204	67715359	+

Transcript Sequence
>GWHTAAZE002043 ATGGCGGCCGTATCAGTCGCCGCAGAATGGCAGCTCCTCGACGATCGGTTCTACAGGAAGCCGGAATTATATCAATTGCAATGGAGAAACGTCGATCTTTCACGGAACAGAGTCGCATGTGCTCCGTTTGGGGGTCCGATCGCGGTTATTCGGGATGATTCGAAGATTGTGCAGCTCTATGCTGAATCTGCGCTTCGTAAACTCCGAATATTTAGCTCTGCTGGGGTTCAGATCTCCGAGACTGTTTGGAAGAACCCCGGGGGACGGTTAATTGGGATGTCGTGGACCGAGGATCAAACCCTAGTTTGCATCACCCAAGACGGCGCGGTTTATCGGTACAACCTTCATGCCGAGCTCATCGAACAAAATGTTTCGATGGGGAAGGAGTGTTTCGAGCACAGTGTGGTTGAATGTGTTTTTTGGGGGAACGGAGTGGTGTGTATCAATGAAGCATTTCAGATTTTCTGCATTCAGGATTTTAAGAACCCTAGGCCAATTAAGATGGCCGATACAGGAATCGAGGAATTCCCTCTCTGCACGGCGGTTATTGAGCCGCAGTATACTATGTCAGGCAATGTGGAGGTGCTGCTTGGTGTTGGGGATTATGTTCTGTTGGTTGAGGAAGATGGGGTTCAGCAGGTGGGTGTTGGGTTGGGGCCGCTACAAAAGATGGTGGTGTCCCATAATGGGAAGTTGTTAGCATCTTTCACTCATGATGGCCGGCTTATGGTTATGTCCACGGACTTTTCAAACATCATTTTTGAGTATACTTGTGAGTCAGGTCTTCCACCAGATCAGTTAGCCTGGTGTGGAATGGACAGTGTGTTACTCTACTGGGATGATGTGCTTTTGATGGTGGGGCCTTATGGAGATGCAGTGCGCTACTTTTATGATGAACCCCTTATTCTTATCCCAGAGTGTGATGGAGTAAGGATACTTTCTAACTCAAGTATGGAATTTCTGCATCGAGTTCCAGATTCCATTGTATCTATCTTTCAGATAGGAAGCACTGAACCTGCTGCTTTACTGTATGATGCCTTAGATCATTTTGATCGGCGAAGTGCCAAGGCTGATGAAAATTTAAGATTGATACGCTCATCACTGCCTGGGGCTGTTGAAGCATGCATTGATGCTGCTGGCGAGGAATTTGATATTTCACAACAACGGACACTACTAAGAGCCGCAAGCTATGGCCAAGCCTTTTGCAGCCATTTTCAACGTGACCGAATCCAAGAAATGTGTAAAACTCTACGGGTCTTAAATGCTGTGCGCAACCAGGAGATTGGCATTCCTCTAAGTATTCACCAGTATAAGTTGCTTACACCATCAGTTCTGATTTGTCGGTTGATTAATGCCCATCAACACCTTCTTGGGCTGAGGATATCGGAGTACCTTGGTATGAACCAAGAAGTGGTGATTATGCACTGGGCGTGTTCAAAGATAACAGCATCCTTAGTGATTCCTGATGCCAGCCTTCTTGAAATTTTACTTGATAAACTAAAATTATGCAAAGGCATATCTTATGCTGCAGTTGCTGCTCATGCAGATAAGAATGGCCGCCGGAAGTTAGCTGCTATGCTCATTGAACACGAACCTCGTTCCTCCAAGCAGGTTCCACTCTTGCTAAGCATAGGAGAGGAAGATACAGCTCTTACAAAAGCAACTGAAAGTGGTGATACTGATCTGGTTTACCTTGTCTTGTTTCATATCTGGCAGAAGAGGCCAGCATTAGAGTTCTTTGGAACAATACAGGCCAGACCACTGGGACGCGATTTATTTATCAATTATGCACGGTGTTATAAGCATGAATTTCTGAAGGACTTCTTTCTATCCACTGGTCAGCTTCAAGATGTTGCCTTTTTATTGTGGAAAGAGTCGTGGGAACTAGGCAAGAATCCAATGGCTAGCAAAGGATCTCCACTTCATGGTCCACGTATAAAACTTGTTGAAAAGGCCCATAGTCTGTTTTCTGAAACGAAGGAGCACATTTTTGAGTCAAAAGCGGCTGAAGAGCATGCAAAATTGCTAAGATTGCAACACGAGCTAGAAGTGAGTACAAAGCAGGCCATTTTTGTGGATTCAAGTATAAGTGATACGATTCGCACATGCATTGTTCTCGGAAATCATCGTGCTGCAGTCAAAGTTAAAACAGAATTCAAGGTATCAGAGAAGCGGTGGTATTGGCTTAAAGTGTTTGCTTTGGCCACAATTCGGGATTGGGATGCCTTAGAAAAATTTTCAAAGGAGAAAAGGCCACCAATTGGTTATCGTCCATTTGTAGAGGCATGCGTTGATGCTGACGAGAAAGGTGAAGCATTAAAGTATATCCCCAAATTGGCAGATCCCCGAGAAAGAGCTGAGGCTTATGCTAGAATTGGGATGGCAAAGGAAGCTGCAGATGCTGCGTCGCAGGCCAAAGATGGTGAGTTGCTCGGGCGTTTGAAGTTGACATTTGCACAGAACGCAGCAGCTTCATCGATTTTTGACACGCTTAGAGACCGATTAGGCGTTTCTTAG

Network for GWHGAAZE002039

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
PF04841.14	Vps16_N	8	408	2.10E-85
PF04840.13	Vps16_C	506	819	3.80E-68
PF00642.25	zf-CCCH	57	82	3.50E-09
PF00642.25	zf-CCCH	105	129	1.30E-09

Protein Sequence

Gene family

Gene family	subfamily
Transcription Factors Family	C3H

KEGG pathway

KO	Enzyme	pathway	mapID
K20180	VPS16	Autophagy - yeast	map04138

Gene Ontology

GO term	Ontology	Name
GO:0006886	biological_process	intracellular protein transport
GO:0007033	biological_process	vacuole organization
GO:0005737	cellular_component	cytoplasm
GO:0046872	molecular_function	metal ion binding
GO:0005515	molecular_function	protein binding

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	59.546
	SRR3591706	second leaf	31.100
	SRR3591707	mature leaf	25.582
	SRR3591708	Shoot apex	50.657
	SRR3591709	Stem	44.726
	SRR3591710	White floral bud	66.138
	SRR3591711	White flower	49.809
	SRR3591712	Green floral bud	73.588
	SRR3591713	Yellow flower	39.845
SRP173429	SRR8316895	Juvenile bud stage	33.621
	SRR8316896	Juvenile bud stage	48.109
	SRR8316897	Juvenile bud stage	23.532
	SRR8316894	Third green stage	21.189
	SRR8316900	Third green stage	62.058
	SRR8316901	Third green stage	59.538
	SRR8316898	Complete white stage	28.479
	SRR8316899	Complete white stage	89.832
	SRR8316903	Complete white stage	41.302
	SRR8316902	Silver flowering stage	18.175
	SRR8316904	Silver flowering stage	28.412
	SRR8316905	Silver flowering stage	14.014
	SRR8316906	Gold flowering stage	32.587
	SRR8316907	Gold flowering stage	29.473
	SRR8316908	Gold flowering stage	36.712
SRP132670	SRR6706286	Control	51.822
	SRR6706287	Light intensity 50%	60.652
	SRR6706288	Light intensity 20%	66.690
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	29.358
	CNS0095593	Slightly white alabastrum(diploid) 2	31.069
	CNS0095594	Slightly white alabastrum(diploid) 3	28.572
	CNS0095595	Whole white alabastrum(diploid) 2	34.010
	CNS0095596	Whole white alabastrum(diploid) 3	33.454
	CNS0095597	Whole white alabastrum(diploid) 4	32.854
	CNS0095598	Silvery flower (diploied) 1	33.771
	CNS0095599	Silvery flower (diploied) 2	32.963
	CNS0095600	Silvery flower (diploied) 3	53.796
	CNS0095601	Golden flower (diploid) 1	26.371
	CNS0095602	Golden flower (diploid) 2	47.167
	CNS0095603	Golden flower (diploid) 3	45.386
	CNS0095604	Slightly white alabastrum(tetraploid) 1	45.244
	CNS0095605	Slightly white alabastrum(tetraploid) 2	37.122
	CNS0095606	Slightly white alabastrum(tetraploid) 3	92.404
	CNS0095607	Whole white alabastrum(tetraploid) 1	28.715
	CNS0095608	Whole white alabastrum(tetraploid) 2	26.627
	CNS0095609	Whole white alabastrum(tetraploid) 3	60.434
	CNS0095610	Silvery flower (tetraploid) 1	48.229
	CNS0095611	Silvery flower (tetraploid) 2	49.870
	CNS0095612	Silvery flower (tetraploid) 3	39.398
	CNS0095613	Golden flower (tetraploid) 1	21.324
	CNS0095614	Golden flower (tetraploid) 2	39.779
	CNS0095615	Golden flower (tetraploid) 3	36.356
CRA001975	CRR073297	Stem 1	62.704
	CRR073298	Stem 2	55.967
	CRR073299	Stem 3	54.493
	CRR073300	Leaf 1	77.585
	CRR073301	Leaf 2	63.124
	CRR073302	Leaf 3	68.639
	CRR073303	Juvenile bud 1	84.745
	CRR073304	Juvenile bud 2	54.073
	CRR073305	Juvenile bud 3	98.102
	CRR073306	Third green 1	26.113
	CRR073307	Third green 2	25.201
	CRR073308	Third green 3	28.989
	CRR073309	Second white 1	25.519
	CRR073310	Second white 2	19.784
	CRR073311	Second white 3	22.179
	CRR073312	Silver flowering 1	17.635
	CRR073313	Silver flowering 2	23.468
	CRR073314	Silver flowering 3	17.767
	CRR073315	Gold flowering 1	23.286
	CRR073316	Gold flowering 2	32.630
	CRR073317	Gold flowering 3	32.527
	CRR073318	Tawny withering 1	47.210
	CRR073319	Tawny withering 2	33.668
	CRR073320	Tawny withering 3	48.889