Gene detail

Detail information of GWHGAAZE009584

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	XP_010321745.1	0	PREDICTED: helicase SKI2W isoform X3 [Solanum lycopersicum]
Swissprot	tr\|B9DFG3\|ISE2_ARATH	6E-75	DEAD-box ATP-dependent RNA helicase ISE2, chloroplastic (Precursor)
trEMBL	tr\|K4C381\|K4C381_SOLLC	0	Uncharacterized protein {ECO:0000313\|EnsemblPlants:Solyc06g005990.2.1}
TAIR10	AT3G46960.1	0	RNA helicase, ATP-dependent, SK12/DOB1 protein

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000002	gene	112841252	112856888	+
GWHAAZE00000002	mRNA	112841252	112856888	+
GWHAAZE00000002	exon	112841252	112841386	+
GWHAAZE00000002	exon	112843877	112844134	+
GWHAAZE00000002	exon	112844888	112845148	+
GWHAAZE00000002	exon	112845252	112845323	+
GWHAAZE00000002	exon	112845509	112845588	+
GWHAAZE00000002	exon	112846232	112846457	+
GWHAAZE00000002	exon	112846621	112846728	+
GWHAAZE00000002	exon	112847962	112848063	+
GWHAAZE00000002	exon	112848164	112848364	+
GWHAAZE00000002	exon	112848517	112848627	+
GWHAAZE00000002	exon	112849490	112849557	+
GWHAAZE00000002	exon	112849680	112850073	+
GWHAAZE00000002	exon	112850636	112850791	+
GWHAAZE00000002	exon	112850895	112851005	+
GWHAAZE00000002	exon	112851092	112851145	+
GWHAAZE00000002	exon	112852810	112853067	+
GWHAAZE00000002	exon	112853422	112853531	+
GWHAAZE00000002	exon	112853724	112853877	+
GWHAAZE00000002	exon	112854054	112854507	+
GWHAAZE00000002	exon	112855159	112855373	+
GWHAAZE00000002	exon	112855674	112855912	+
GWHAAZE00000002	exon	112856173	112856299	+
GWHAAZE00000002	exon	112856676	112856888	+
GWHAAZE00000002	CDS	112841252	112841386	+
GWHAAZE00000002	CDS	112843877	112844134	+
GWHAAZE00000002	CDS	112844888	112845148	+
GWHAAZE00000002	CDS	112845252	112845323	+
GWHAAZE00000002	CDS	112845509	112845588	+
GWHAAZE00000002	CDS	112846232	112846457	+
GWHAAZE00000002	CDS	112846621	112846728	+
GWHAAZE00000002	CDS	112847962	112848063	+
GWHAAZE00000002	CDS	112848164	112848364	+
GWHAAZE00000002	CDS	112848517	112848627	+
GWHAAZE00000002	CDS	112849490	112849557	+
GWHAAZE00000002	CDS	112849680	112850073	+
GWHAAZE00000002	CDS	112850636	112850791	+
GWHAAZE00000002	CDS	112850895	112851005	+
GWHAAZE00000002	CDS	112851092	112851145	+
GWHAAZE00000002	CDS	112852810	112853067	+
GWHAAZE00000002	CDS	112853422	112853531	+
GWHAAZE00000002	CDS	112853724	112853877	+
GWHAAZE00000002	CDS	112854054	112854507	+
GWHAAZE00000002	CDS	112855159	112855373	+
GWHAAZE00000002	CDS	112855674	112855912	+
GWHAAZE00000002	CDS	112856173	112856299	+
GWHAAZE00000002	CDS	112856676	112856888	+

Transcript Sequence
>GWHTAAZE009596 ATGGATCGGATCGACGCAACGAACGAACTATCTTTTCGGGTCGGGTTCACCGGTCACAGTGGTCATCTCAAAATCGAGCCCCTCCCTCCCGTCGAAAGCCCTAATCCCCGCAACTCGGTCCCGGACTTCATACTCCCTCCTGCATTTCCTAAGGAAACACCAGAATCAATAAAAGAGTATATAGAGGAGAAATATCTCTTGCCGAGATTGGACCCTGACGTATTTTCTCCAGAGAAAGCTGGAAGGCAGTGGGAATTTGATTGGTTTGGAAAAGCAAAAATTCACCTAGAGCCGTCATTGCCTCGTTCTGTTATGGTTCCCACATGGGAATTACCCTTTAGACGTCCTAGGAGAGGATCTGAGCTTGAAAAGTATGAACCCCGCTCGGTCCAGGTGGATGTATCAGAAGTTACGGTAGGAGCCGAGGATTCTGGTGCTTTGCCACGCATATCTGGACTGGCAAAGGATTTTGTAAAGGGAAGCATCAACAACCGTCCGTTTCGTCCAGGTGGTCTTGATGACTCTCAATCTTTGGGAAGGGTTCTTCCTGATGGTGCTTCTAATGGTGAATGGGTATGGGAGGTTCTTAATGGTGGACCGGCACAGACCATTCCTCCAAGCTTTAAACAAGGAGTAGACCTCGGTAATCTCAAGGCACATTCATACTCGTGGAAAGTTTATGACAATCAAGGTGCAGTCAAGAGCATGTCAGATGCTGCAAAGCCGAATACATTATCTGTGCAGTTTGATGATTTGTTTAAAAAAGCTTGGGAAGAGGACATCACAGAATTAACGGCCGATGGTCTTGCCATTTCTAAAGGTCATATCTCAGAGCCTGAAGCTGAAGTGAATGAGTTGGAGTTGGATAAGCCATCTGTTCCATTGAGATCTGAAGTGAATAAGTTGGATATGACCTTTGATGTTTTTGATAAGGAATCATCTGTTTTGGATGAGATTTTGTCAGTTGAATCAGAAGTATTAACTTCAAGGTTGGATGGAGCTGGTGATGGTGGTGATCAGCAGCCAACAGAGGCCTGGGCTGTTTACGGAGGCACTGAAGTGATTGCGAATAATTTTTATGATCTTGTTCCTGACATGGCGCTTGATTTTCCTTTTGAACTGGATACATTCCAAAAGGAGGCTATCTATTATCTTGAAAAGGGAGACTCTGTTTTTGTGGCAGCTCATACATCAGCTGGGAAAACAGTTGTTGCAGAGTATGCATTTGCTCTTGCATCAAAACATTGTACAAGAGCTGTATATACTGCTCCTATCAAAACCATTAGTAATCAGAAGTACAGGGATTTCTGTGGGAAATTTGATGTCGGTCTTCTCACAGGGGATGTTAGCATAAGGCCTGAGGCTTCTTGTCTCATCATGACCACTGAGATATTAAGATCAATGCTTTATAGGGGTGCAGATATAATACGTGATATTGAATGGGTTATATTTGATGAAGTGCATTATGTCAATGATGTTGAAAGAGGTGTTGTTTGGGAAGAAGTGATTATCATGCTTCCAAGGCATATCAATATTGTCCTCCTTTCAGCAACGGTACCAAATACAATTGAATTTGCTGATTGGATTGGTCGGACGAAGCAAAAGGAAATTCGTGTAACTGGGACGACCAGAAGACCCGTCCCATTAGAGCACTGCATTTTTTATTCTGGAGAACTTTACAAAGTCTGTGAAAATGAGAAGTTTATATCTCTGGGATTCAAAGCTGCCAAAGATGCCCACAAGAAGAAAAATATGAATACAGCTGGTGGTAGCACTGGATCGTATCCAGTGTTGTCTTCAGGGGCCCATGACGGTGGTCGAGGTCAAAAACGCGATAATTCTATTCGGGGCAAACAAAGCAAGCATTCTGGATCTCGAAATCCAGGGAACTCTTCCGGGGCTGGTTGGGCAAACCAAAACAATGGTGGTGGCCAGAGAAATTTCGGGTCATGGAGATCAGAAGCTTCTGTGTGGTTATTGCTTATTAATAAGCTTTTAAAGAAGTCGTTGTTACCTGTTGTCATATTTTGTTTCTCGAAGAATCGCTGCGACAAATCAGCTGATAATTTGACTGGGACAGATCTCACAAGTAGTTCTGAGAAAAGTGAAATTCGAGTTTTTTGTGACAAAGCATTTGGGAGGCTAAAGGGATCTGACAGGAACTTACCACAGGTTGTCAGAGTTCAAAGCCTTCTTCGTCGAGGGATTGGTGTTCATCATGCAGGGCTGCTTCCAATTGTTAAGGAAGTTGTTGAAATGCTTTTCTGCCGTGGTGTCATTAAGGTTTTATTTTCAACAGAGACATTTGCGATGGGAGTTAATGCCCCTGCTAGAACGGTCGTTTTTGATACGTTAAGGAAGTTTGATGGCAAGTCATTTAGACAGTTGCTTCCTGGAGAATACACTCAGATGGCTGGTCGTGCTGGCAGGAGAGGACTTGATAAGATCGGTACAGTAGTTGTGTTGTGCCGAGATGAAATGCCAGAAGAGTCGGATTTGAAGCATGTTATAGTCGGCAGTGCAACAAGGCTTGAATCTCAATTTCGACTAACCTATATTATGATATTGCATCTCCTTCGGGTTGAAGAATTGAAGGTGGAGGACATGTTGAAAAGAAGTTTTGCTGAATTTCATGCCCAGAAGAAACTTCCAGAACAACAGCAACTTCTAATGAGAAAGCTTGCTCAACCTACAAAAGCTATTGAATGTATAAAGGGTGAACCAGCAATTGAGGAATACTACGAGTGGCATGCAGAGGCCGAGATGTATAGCAACCAGTTATTGGAGGCAGTCATGCAGAACTCTGTTTCACAACAATTTCTTTTACCTGGCCGAGTTGTTGTCGTTAAATCACATTCAGCTCAAGACCACTTACTTGGAGTTATCGTAAAATCGCCTTCAGCCAATAGTAAACAATATATAGTTTTAGTACTGACACCTGATCTACTGTCAACTTTCGAAGCCCCCTTGGATGGTGATTTACAAAATAAAAGAAGTGCTGATTTCCAGATATTGATGCCCAAATCGAAACGGGGTTTGGAGGATGAATATTATTCATCTGTCACATCCCGCAAAGGATCTGGTGTTGTCAACATAAAATTACCTCACCGAGGTAATGCTGCCGGGGTGAATTACGAGGTCAGAGGAATTGATAATAATGAGTTCTTGTCCATATGCAATTTCAAAATAAAAATTGACCAAGTTCGGCTCCTTGAAGATGTTAGCAGTGCAGCTTATTCCAAGACTGTACAACAGCTATTGGATCTTAAATCTGATGGTGGTAAATACCCTCCAGCCCTAGATCCAGTGAAAGATCTTAGGCTGAAAGATGTGAACCTTGTGGAAGCTTACTACAAATGGAACAACCTGTTGCAAAAGATGTCTCAAAACAAGTGTCACGGCTGTGTTAAATTGGAGCAGCACCTTAGGTTAGCAAAAGAGATAAAAGGGCACAAAGAGGAAGTCAATGCCTTGAAGTTTCAAATGTCAGATGAAGCACTTAAGCAGATGCCAGACTTTCAGGGCCGTATAGATGTTTTAAAGGAAATCGGGTGTATTGATGCTGAACTCGTAGTTCAGATCAAAGGGCGTGTTGCTTGTGAGATGAATTCGGGGGAGGAGCTAATATGTACAGAGTGCTTGTTTGAGAACCAACTGGATGACCTGGAACCTGAAGAAGCTGTGGCAATAATGTCAGCCCTTGTGTTTCAGCAGAAGAACACTTCTGAACCTTCTCTCACTCCTAAGCTATCCCAGGCTAAACAGAGATTATTGGACACAGCTAAAAGACTTGGGGAACTTCAAGCCAATTTCAATGTACAAGTTGAACCTGACGAGTATGCTCAGGAGAATCTCAAGTTTGGTCTTGTTGAAGTGGTTTACGAGTGGGCCAAGGGTACTCCATTTGCCGATATTTGTGAGCTCACAGATGTTCCAGAGGGGCTGATAGTGAGGACGATCGTCAGACTGGACGAGACATGCCGTGAGTTTAGAAATGCTGCATCAATTATGGGTAACTCAGCACTTTACAAGAAGTTGGAAATTGCTTCTAACGCAATAAAGCGTGATATTGTTTTTGCGGCTAGTTTGTACATCACCGGAGTATAA

Network for GWHGAAZE009584

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
PF17911.2	Ski2_N	79	219	2.20E-15
PF00270.30	DEAD	377	523	2.40E-14
PF13234.7	rRNA_proc-arch	867	1164	1.10E-44
PF08148.13	DSHCT	1191	1360	1.10E-49

Protein Sequence

>GWHPAAZE009590
MDRIDATNELSFRVGFTGHSGHLKIEPLPPVESPNPRNSVPDFILPPAFPKETPESIKEYIEEKYLLPRLDPDVFSPEKAGRQWEFDWFGKAKIHLEPSLPRSVMVPTWELPFRRPRRGSELEKYEPRSVQVDVSEVTVGAEDSGALPRISGLAKDFVKGSINNRPFRPGGLDDSQSLGRVLPDGASNGEWVWEVLNGGPAQTIPPSFKQGVDLGNLKAHSYSWKVYDNQGAVKSMSDAAKPNTLSVQFDDLFKKAWEEDITELTADGLAISKGHISEPEAEVNELELDKPSVPLRSEVNKLDMTFDVFDKESSVLDEILSVESEVLTSRLDGAGDGGDQQPTEAWAVYGGTEVIANNFYDLVPDMALDFPFELDTFQKEAIYYLEKGDSVFVAAHTSAGKTVVAEYAFALASKHCTRAVYTAPIKTISNQKYRDFCGKFDVGLLTGDVSIRPEASCLIMTTEILRSMLYRGADIIRDIEWVIFDEVHYVNDVERGVVWEEVIIMLPRHINIVLLSATVPNTIEFADWIGRTKQKEIRVTGTTRRPVPLEHCIFYSGELYKVCENEKFISLGFKAAKDAHKKKNMNTAGGSTGSYPVLSSGAHDGGRGQKRDNSIRGKQSKHSGSRNPGNSSGAGWANQNNGGGQRNFGSWRSEASVWLLLINKLLKKSLLPVVIFCFSKNRCDKSADNLTGTDLTSSSEKSEIRVFCDKAFGRLKGSDRNLPQVVRVQSLLRRGIGVHHAGLLPIVKEVVEMLFCRGVIKVLFSTETFAMGVNAPARTVVFDTLRKFDGKSFRQLLPGEYTQMAGRAGRRGLDKIGTVVVLCRDEMPEESDLKHVIVGSATRLESQFRLTYIMILHLLRVEELKVEDMLKRSFAEFHAQKKLPEQQQLLMRKLAQPTKAIECIKGEPAIEEYYEWHAEAEMYSNQLLEAVMQNSVSQQFLLPGRVVVVKSHSAQDHLLGVIVKSPSANSKQYIVLVLTPDLLSTFEAPLDGDLQNKRSADFQILMPKSKRGLEDEYYSSVTSRKGSGVVNIKLPHRGNAAGVNYEVRGIDNNEFLSICNFKIKIDQVRLLEDVSSAAYSKTVQQLLDLKSDGGKYPPALDPVKDLRLKDVNLVEAYYKWNNLLQKMSQNKCHGCVKLEQHLRLAKEIKGHKEEVNALKFQMSDEALKQMPDFQGRIDVLKEIGCIDAELVVQIKGRVACEMNSGEELICTECLFENQLDDLEPEEAVAIMSALVFQQKNTSEPSLTPKLSQAKQRLLDTAKRLGELQANFNVQVEPDEYAQENLKFGLVEVVYEWAKGTPFADICELTDVPEGLIVRTIVRLDETCREFRNAASIMGNSALYKKLEIASNAIKRDIVFAASLYITGV

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K12599	SKI2, SKIV2L	RNA degradation	map03018

Gene Ontology

GO term	Ontology	Name
GO:0006401	biological_process	RNA catabolic process
GO:0003676	molecular_function	nucleic acid binding
GO:0005524	molecular_function	ATP binding
GO:0003723	molecular_function	RNA binding
GO:0003724	molecular_function	RNA helicase activity

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	12.217
	SRR3591706	second leaf	6.147
	SRR3591707	mature leaf	6.707
	SRR3591708	Shoot apex	14.267
	SRR3591709	Stem	11.994
	SRR3591710	White floral bud	9.059
	SRR3591711	White flower	11.835
	SRR3591712	Green floral bud	9.494
	SRR3591713	Yellow flower	8.623
SRP173429	SRR8316895	Juvenile bud stage	7.047
	SRR8316896	Juvenile bud stage	13.611
	SRR8316897	Juvenile bud stage	4.790
	SRR8316894	Third green stage	4.383
	SRR8316900	Third green stage	7.176
	SRR8316901	Third green stage	7.201
	SRR8316898	Complete white stage	1.571
	SRR8316899	Complete white stage	10.022
	SRR8316903	Complete white stage	3.467
	SRR8316902	Silver flowering stage	2.957
	SRR8316904	Silver flowering stage	4.481
	SRR8316905	Silver flowering stage	2.323
	SRR8316906	Gold flowering stage	8.958
	SRR8316907	Gold flowering stage	6.266
	SRR8316908	Gold flowering stage	8.246
SRP132670	SRR6706286	Control	6.659
	SRR6706287	Light intensity 50%	6.895
	SRR6706288	Light intensity 20%	7.019
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	6.062
	CNS0095593	Slightly white alabastrum(diploid) 2	5.014
	CNS0095594	Slightly white alabastrum(diploid) 3	5.773
	CNS0095595	Whole white alabastrum(diploid) 2	4.119
	CNS0095596	Whole white alabastrum(diploid) 3	3.544
	CNS0095597	Whole white alabastrum(diploid) 4	4.359
	CNS0095598	Silvery flower (diploied) 1	8.332
	CNS0095599	Silvery flower (diploied) 2	6.647
	CNS0095600	Silvery flower (diploied) 3	8.199
	CNS0095601	Golden flower (diploid) 1	7.650
	CNS0095602	Golden flower (diploid) 2	9.787
	CNS0095603	Golden flower (diploid) 3	9.216
	CNS0095604	Slightly white alabastrum(tetraploid) 1	5.463
	CNS0095605	Slightly white alabastrum(tetraploid) 2	4.151
	CNS0095606	Slightly white alabastrum(tetraploid) 3	10.940
	CNS0095607	Whole white alabastrum(tetraploid) 1	4.257
	CNS0095608	Whole white alabastrum(tetraploid) 2	2.804
	CNS0095609	Whole white alabastrum(tetraploid) 3	5.541
	CNS0095610	Silvery flower (tetraploid) 1	8.247
	CNS0095611	Silvery flower (tetraploid) 2	8.141
	CNS0095612	Silvery flower (tetraploid) 3	6.007
	CNS0095613	Golden flower (tetraploid) 1	3.657
	CNS0095614	Golden flower (tetraploid) 2	6.500
	CNS0095615	Golden flower (tetraploid) 3	5.241
CRA001975	CRR073297	Stem 1	14.565
	CRR073298	Stem 2	12.966
	CRR073299	Stem 3	7.720
	CRR073300	Leaf 1	10.193
	CRR073301	Leaf 2	8.360
	CRR073302	Leaf 3	4.588
	CRR073303	Juvenile bud 1	5.148
	CRR073304	Juvenile bud 2	2.184
	CRR073305	Juvenile bud 3	7.510
	CRR073306	Third green 1	1.110
	CRR073307	Third green 2	0.529
	CRR073308	Third green 3	1.168
	CRR073309	Second white 1	1.553
	CRR073310	Second white 2	2.426
	CRR073311	Second white 3	2.401
	CRR073312	Silver flowering 1	2.058
	CRR073313	Silver flowering 2	1.930
	CRR073314	Silver flowering 3	1.164
	CRR073315	Gold flowering 1	2.527
	CRR073316	Gold flowering 2	4.917
	CRR073317	Gold flowering 3	2.557
	CRR073318	Tawny withering 1	5.592
	CRR073319	Tawny withering 2	7.086
	CRR073320	Tawny withering 3	6.867