Gene detail

Detail information of GWHGAAEX010543/evm.TU.scaffold_30.2

Functional Annotation

Database	Orthologs	E value	Annotation
COG	gi\|296269793\|ref\|YP_003652425.1\|	8.00E-96	DSH domain-containing protein [Thermobispora bispora DSM 43833]
KOG	KOG0947	0	Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily
nr	gi\|743810563\|ref\|XP_010928930.1\|	0	PREDICTED: helicase SKI2W isoform X1 [Elaeis guineensis]
Swissprot	tr\|B9DFG3\|ISE2_ARATH	8.00E-74	DEAD-box ATP-dependent RNA helicase ISE2, chloroplastic (Precursor)
trEMBL	tr\|M0TX80\|M0TX80_MUSAM	0	Uncharacterized protein {ECO:0000313\|EnsemblPlants:GSMUA_Achr9P03710_001}
TAIR	AT3G46960	0	RNA helicase, ATP-dependent, SK12/DOB1 protein

Location And Transcript Sequence

Scaffold	Start	End	Strand
GWHAAEX00000033	115805	217153	+

Transcript Sequence
>GWHTAAEX010543 GTGTTTTAGCTAGTGAATAAGGTTATTGATTTGTGCCCCAGATGAACCGCGCAGTTGTAACCTAGATGGCGGGATATACTTGTTGAAAATCCCTCTCCATGAATGGAACGCAGGAACATTCTGGGATTGAAAGTCTGCGCTACTTGATTTTGTTTGCGAAGGTTTTTGAAAGAGAAAATTCACGCAGAAGAATGGAAACTAGGGCGTGGTAAAAGAGTACGGCTGAATTGCGGTCGCCATGGATCGGATCACCGCGGGGAACGAGCTTGGTTTTAGAATAGGGTTCTCTGGTCACAGCGGGCATCTGAGAATGGAGCCGCTTCATCCTGCTGAAAGATTGTCCCCATTGAAATCCCTACCCGATTTTATCATTCCACCTGCGCTTCCTCCCGAAACACCCCAAACCTTGAAAAGGCATCTAGAGGATACTTATGTGTCCCCAGCCCTGGATCCTGATGAATTTTCTGCTGAAAAGGATGGAAGAATGTGGGAATTTGATTGGTTTGACAAGGCAAAAATTCCATTGGATCCATCCTTACCTCGCTATGCTGTTGCACCAGCTTGGGAGTTGCCATTTAGGCGATCAAAGAACGAGGATCCTTCAGCATTGTGGGATTTAAATTCAATTCAGGTTGATGTTGCAGAGAAACTGGAAGCACAAGATTCCAGTATTTTGCCACGCTTGCCAGGGCCAGCAAAGGATTTTGTGAGAGGGAACATTAATAATAAACCTTTTCATCCCGGAGGTCTGGATAATTCACAATCAGAGCGGATTCTTCCAGAAGGAGCTCATAATGGTGAATGGGTTCGTGAGATTTTTGATGGTGGGATTGCACAATCCGTGCCTCCTAGTTTCAAAAAGGGTTTGGACTTAGGCTATTTGAAGGGATTTCCTTGTCAGTGGAAGCAAGGCAAACATTGTATCACTTCATCAGATAATATTATCGGGAAAAATCCTGATCAATTGTCTGTTCAATTTGATGAATTATTCAAGAATGCATGGGAGCAAGATGTTTATGGAGTAGAAGATGATGGTTTCATGGAATCAGGAGTTAAAGATGTGACTGTGACTAGTGGTTCTGAAAATAGCACTGAATATTTTGCATTAGATGAAATATTATCAACTAAACCTGGGCAAGGAACATCATATGGGATAGTTGATGAGAAGAAGCAGAAGGAAAACGAGGCGTGGGCCTCTCCATGTGCCAGTGATGAGATCGCTGCTTGTTTTCATGAGCTTGTACCTGAAATGGCACTTGATTTTCCTTTTGAGTTAGATAAATTTCAGAAGGAGGCTATATATTATCTTGAGAAGGGTGAGTCTGTATTTGTAGCAGCTCATACATCCGCTGGAAAGACGGTTATTGCGGAGTATGCTTTTGCATTAGCATCGAAGCATTGTACTCGTGCTGTCTACACTGCTCCTATAAAAACTATCAGCAATCAGAAATATAGAGATTTCTGCAGCAAATTTGACGTAGGTCTTCTAACTGGTGATGTTAGCCTAAAACCGGAAGCATCATGCCTTATTATGACTACTGAGATCTTGAGGTCAATGCTTTATAGAGGTGCTGATATTATTCGTGATATTGAGTGGGTCATATTTGATGAAGTGCATTATGTGAATGATGCTGAAAGAGGGGTTGTATGGGAGGAGGTTATCATCATGCTACCAAGGCATGTTAACATTGTGCTGCTTTCAGCTACTGTTCCAAACACAACAGAATTTGCTGATTGGATTGGTCGCACAAAGCAGAAAAAAATTCGCGTACTTGGGACGTTAAAGAGACCTGTTCCCCTCGAACACTGCTTATTCTATTCTGGAGAATTATATAAAGTTGGTGACAATGAAGTTTTTCTGCATCAAGGATTTAGAGCAGCTAAGGAGGTTCTTAAGAAAAAGAATTCTGGGATATCCGTAGGCAGTTCTGGGACTCACATAGCAGGTACCCGTGGTACAAATCAATCTCGTCCACGGGAAAATTTCAGTAGAGGGAAAGGACAGAAATTCTCAGGGACTAGTGGAGCAGGCCAAAGTGTCTGGGGACAATGGAAATCTGAATCTTCTTTCTGGTTGTTGCTGATACACAAGCTATTGAAAAAGTCACTTTTGCCTGTGATTATTTTCTGCTTCTCAAAGAACCGTTGTGACAAATCAGCTGATAACATAACAAGCATAGACCTGACTAGTAATTCTGAGAAAAGTGAGATACGCATCTTCTGTGACAAGGTTTTTTCACGATTGAAAGGTTCTGACAGAAATCTTCCTCAGATTGTTCGTGTTCAAAGCTTGCTTCGGAGGGGTATTGGGGTGCACCATGCTGGTCTTCTTCCAATAGTTAAAGAAGTAGTTGAGATGCTCTTCTGCCGTGGTGTAATCAAGGTGTTATTTTCCACAGAGACCTTTGCAATGGGGGTCAATGCTCCAGCAAGAACTGTTGTATTTGATGCTTTAAGAAAATTTGATGGAAAAGATTTCAGGCAACTGCTTCCTGGGGAGTATATACAAATGGCTGGTCGTGCAGGTAGAAGAGGACTTGATGACATTGGTACAGTTGTACTTATGTGTCGTGATGATATTCTAGAGGAGAGTGATCTAAAACATGTCATGGTTGGAAAACCAACTAAGCTTGAATCTCAGTTCCGGTTAACATACACCATGATTCTTCACCTCCTTCGTGTTGAAGAACTTAAGGTGGAGGACATGTTGAAAAGAAGCTTTGCTGAGTTTCACGCTCAAAAGAACCTACCTGAAAAGCAAAAACTGCTTCTCTTAAAATTATCTGAAAGTACCAAAACGATAGAATGTATAAAAGGTGAACCTGCTATTGAAGAGTACTATGAGATGGCATCGCAAGCTGAAGCGTACGGGGATCAAGTATCAGGAGCAGTCATGCAGTCTCATTCCACGCAATCGTTTCTTTCACCTGGCAGAGTTGTTGTTGTTAAATCACAATCTGATGATGATCACTTTCTTGGTGTAATTATTAAATCACCATCTACTACATATAAAAAGTATGTTGTTCTAGTGTTGACAACAGATATGATCTCAACTTTGGAATCTCCAGAACCACTGGTGAATAAGTTGCAAGAGAAAGAAATTAGCCATGCTCCACAAGGTTATTTCATTCAGCCTAAAGGAAAGAGGGGCGTGGAAGAGGATTATTTTACATCAGTTACTTCGAGAAAAGGGACTGGTATTATAAATATAAAGTTGCCTTACCGTGGTAATGCAGCTGGGATGAACTATGAAGTTAGAGAAGTTGAAAATAAAGAATTCATGGGTATTTGTAATTGCAAAATAAAGATTGATCAAGTATGGCTCCTCGAGGATCCCAAAACTGCAGTTTATTCTAAAACTGTTCAACAACTGTTAGAACTCAGGCTTGATGGAACAAACTATCCCCCTCTTCTTGATCCTGTTAAAGATCTCAAGATGAAAGATGTGATTATTGTAGAGAACTACTACATGCATAATAAAATACTACAAAAGATGACTGAGAACAAGTGCCATGGATGCATTAAGTTGAAAGAACACCTTTTATTGTTGAAGGAACTAAATAAACACAAGGACGAAGTCAACGCTTTGAAGTTTCAAATGTCAGATGAAGCATTGCAACAAATGCCAGATTTTCAGGGCAGAATTGATGTGTTGAAAGAAATCCAATGCATTGATTATGATCTAGTTGTGCAAATCAAAGGGAGAGTAGCATGTGAGATGAACTCAGGGGAGGAGTTGATATGCACGGAGTGCTTGTTTGAGAATCAATTCGATGACTTGGAACCCGAAGAAGCTGTAGCAATTATGTCTGCATTTGTTTTCCAGCAGAAGAATACATCTGAACGAGCACTTACGCCTAAACTAGCTCAGGCAAAAAAGAGACTGTGGGACACAGCAATCAGACTGGGGGAACTTCAATCCCAGTTCAAACTAGCCGTTTATCCTGAAGAGTATGCTAAAGAAAATCTCAAATTTGGGCTGGTTGAAGTTGTTTATGAATGGGCAAAGGGGACTCCATTTGCTGATATATGTGAGCTAACCGATGTACCGGAAGGCCTGATTGTGCGGACAATCGTTCGGCTGGACGAAACGTGCCGGGAGTTCAGGAACGCTGCCTCCATAATGGGGAACTCCGCTCTGCATAAGAAGATGGAAATTGCCTCTGAGGCTATAAAGCGCGATATTGTTTTTGCCGCCAGTTTATACGTCACCGGCGTTTGACCAAACTTGCTTTATCACTAACTGCCGTTTGATCCTCAATTTGTTATTTTCTTTGTTATGTCTTAAGGCTTTTTTGGTCTTTGAAATATTATACATAAACAGCTGAAGCTTTTATGTCTAGCTTAAGCTGAAGCTTTTTTGGTCTTTGAAATATTATACATAAACTTGCTTTTATGTCTAGCTTAAGCTG

Network for GWHGAAEX010543

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
PF00270.28	DEAD	349	494	7.30E-15
PF00271.30	Helicase_C	650	766	2.70E-05
PF13234.5	rRNA_proc-arch	821	1122	5.80E-40
PF08148.11	DSHCT	1150	1319	9.40E-52

Protein Sequence

>GWHPAAEX010543
MDRITAGNELGFRIGFSGHSGHLRMEPLHPAERLSPLKSLPDFIIPPALPPETPQTLKRHLEDTYVSPALDPDEFSAEKDGRMWEFDWFDKAKIPLDPSLPRYAVAPAWELPFRRSKNEDPSALWDLNSIQVDVAEKLEAQDSSILPRLPGPAKDFVRGNINNKPFHPGGLDNSQSERILPEGAHNGEWVREIFDGGIAQSVPPSFKKGLDLGYLKGFPCQWKQGKHCITSSDNIIGKNPDQLSVQFDELFKNAWEQDVYGVEDDGFMESGVKDVTVTSGSENSTEYFALDEILSTKPGQGTSYGIVDEKKQKENEAWASPCASDEIAACFHELVPEMALDFPFELDKFQKEAIYYLEKGESVFVAAHTSAGKTVIAEYAFALASKHCTRAVYTAPIKTISNQKYRDFCSKFDVGLLTGDVSLKPEASCLIMTTEILRSMLYRGADIIRDIEWVIFDEVHYVNDAERGVVWEEVIIMLPRHVNIVLLSATVPNTTEFADWIGRTKQKKIRVLGTLKRPVPLEHCLFYSGELYKVGDNEVFLHQGFRAAKEVLKKKNSGISVGSSGTHIAGTRGTNQSRPRENFSRGKGQKFSGTSGAGQSVWGQWKSESSFWLLLIHKLLKKSLLPVIIFCFSKNRCDKSADNITSIDLTSNSEKSEIRIFCDKVFSRLKGSDRNLPQIVRVQSLLRRGIGVHHAGLLPIVKEVVEMLFCRGVIKVLFSTETFAMGVNAPARTVVFDALRKFDGKDFRQLLPGEYIQMAGRAGRRGLDDIGTVVLMCRDDILEESDLKHVMVGKPTKLESQFRLTYTMILHLLRVEELKVEDMLKRSFAEFHAQKNLPEKQKLLLLKLSESTKTIECIKGEPAIEEYYEMASQAEAYGDQVSGAVMQSHSTQSFLSPGRVVVVKSQSDDDHFLGVIIKSPSTTYKKYVVLVLTTDMISTLESPEPLVNKLQEKEISHAPQGYFIQPKGKRGVEEDYFTSVTSRKGTGIINIKLPYRGNAAGMNYEVREVENKEFMGICNCKIKIDQVWLLEDPKTAVYSKTVQQLLELRLDGTNYPPLLDPVKDLKMKDVIIVENYYMHNKILQKMTENKCHGCIKLKEHLLLLKELNKHKDEVNALKFQMSDEALQQMPDFQGRIDVLKEIQCIDYDLVVQIKGRVACEMNSGEELICTECLFENQFDDLEPEEAVAIMSAFVFQQKNTSERALTPKLAQAKKRLWDTAIRLGELQSQFKLAVYPEEYAKENLKFGLVEVVYEWAKGTPFADICELTDVPEGLIVRTIVRLDETCREFRNAASIMGNSALHKKMEIASEAIKRDIVFAASLYVTGV

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:0005524	Molecular Function	ATP binding
GO:0003724	Molecular Function	RNA helicase activity
GO:0003723	Molecular Function	RNA binding
GO:0003676	Molecular Function	nucleic acid binding

Expression pattern

SRP	Sample	Description	FPKM
SRP064423	SRR2545914	vegetative propagation corms	34.280
SRP064423	SRR2545915	Juvenile tuber	37.340
SRP108465	SRR5643513	five period of Gastrodia elata	23.260
	SRR5643514	five period of Gastrodia elata	24.780
	SRR5643515	five period of Gastrodia elata	22.340
	SRR5643524	five period of Gastrodia elata	22.190
	SRR5643525	five period of Gastrodia elata	19.420
	SRR5643528	five period of Gastrodia elata	14.780
	SRR5643658	five period of Gastrodia elata	18.810
	SRR5643659	five period of Gastrodia elata	22.860
	SRR5643660	five period of Gastrodia elata	25.960
	SRR5643661	five period of Gastrodia elata	24.400
	SRR5643662	five period of Gastrodia elata	21.740
	SRR5643663	five period of Gastrodia elata	22.740
	SRR5643664	five period of Gastrodia elata	24.810
SRP118053	SRR6049654	Rhizomagastrodiae_C368-T07_good_1	30.330
	SRR6049655	Rhizomagastrodiae_C368-T10_good_1	19.910
	SRR6049656	Rhizomagastrodiae_C368-T07_good_1	25.030
	SRR6049657	Rhizomagastrodiae_C368-T07_good_1	30.500
	SRR6049658	Rhizomagastrodiae_C368-T04_good_1	30.970
	SRR6049659	Rhizomagastrodiae_C368-T04_good_1	35.880
	SRR6049660	Rhizomagastrodiae_C368-T01_good_1	28.570
	SRR6049661	Rhizomagastrodiae_C368-T04_good_1	30.880
	SRR6049662	Rhizomagastrodiae_C368-T01_good_1	25.190
	SRR6049663	Rhizomagastrodiae_C368-T01_good_1	26.800
	SRR6049664	Rhizomagastrodiae_C368-T10_good_1	23.470
	SRR6049665	Rhizomagastrodiae_C368-T10_good_1	23.470
SRP279888	Gastro	Gastrodia elata tuber	28.49
	Juven	Juvenile tuber	34.86
	Mother_Gastro	Mother tuber of Gastrodia elata	24.12
	Mother_Juven	Mother tuber of Juvenile	33.06