Gene detail

Detail information of GWHGAAEX002956/evm.TU.scaffold_128.60

Functional Annotation

Database	Orthologs	E value	Annotation
COG	gi\|428312618\|ref\|YP_007123595.1\|	4.00E-71	bacteriophytochrome (light-regulated signal transduction histidine kinase) [Microcoleus sp. PCC 7113]
nr	gi\|743769093\|ref\|XP_010914830.1\|	0	PREDICTED: phytochrome A isoform X2 [Elaeis guineensis]
Swissprot	tr\|P33530\|PHYA1_TOBAC	0	Phytochrome A1
trEMBL	tr\|Q6VAP1\|Q6VAP1_9ASPA	0	Phytochrome {ECO:0000256\|PIRNR:PIRNR000084}
TAIR	AT1G09570	0	phytochrome A

Location And Transcript Sequence

Scaffold	Start	End	Strand
GWHAAEX00000130	2876694	2890152	-

Transcript Sequence
>GWHTAAEX002956 AAGAAGAAGAAGAAGAAGAAGAGGTGTAAGAGTATGTCATCGTCGAGACCATCGCAGTCTTCTTCCGGCTCTAGCCGGAGCAAGCAGAGTGCAAGAATCATCGCTCAGACCACAGTGGATGCTAAGCTGGATGCGGAGTTCGAAGCGATGGGCACCTGCTTTGACTACTGCCAGTCCGTTAGGACTCCGGTCGACGAAGGAAAGTCCGAGAAGGTGACGGCCTACTTGCAGCACATCCAAAAGGGAAAGTTCATCCAGCCATTCGGCTGCTTGCTGGCTCTCGACGAGAAGACCTTCAAGATCGTAGCCTTCTCTGAGAACGCTCCCGAGATGCTCACGATGACGAGCCACGCGGTTCCCAGTGTTGGGGATCACCCGACCCTCGGCTTCGGCACTGATGTGAGGAGCCTCTTCACTTCCCCGAGCACGGCGGCGCTCCAGAAGGCGTTGGGATTCGCAGAGGTTTCTCTCTTGAATCCCATTCTTGTTCACTGCAGGACGTCCGGTAGGCCGTTCTACGCGATCGTGCACAGAGTCACCGGCTGCTTGGTCATAGATTTTGAGCCGGTGAAGCCCAGCGATGTCCCCATGACCGCTGCGGGGGCTTTGCAGTCATACAAGCTCGCCGCCAAAGCGATTGCCAGGCTTCAGTCTTTGCCGGATGGGAGCATGAAGAAGCTCTGCAGCGCTGTGGTTGAAGAGGTGTTTGAACTGACAGGGTATGACAGGGTTATGGCTTACAAGTTTCATGAGGATGATCATGGGGAAGTGTATTCGGAGATCACAAAGCCCGGATTAGAACCCTACGCGGGGCTGCATTACCCGGCCACCGATATACCTCAGGCTGCGAGGTTTCTCTTCATGAAGAACAAGATTCGAATGATCTGTGATTGCCGGGCGAAGCATGTGAAGGTTTTTCAGGATGAGAAGCTTCCTTTTGATGTCAATTTTTGCGGGAGCACTCTCAGGGCACCTCATAGTTGCCACCTGCAGTATATGGAGAACATGATTTCAATTGCTTCTCTGGTAATGGCAGTGATTGTGAATGAAGGAGAGGATGATGACGGCAACGAGAGCGAGCAGAATCCGCAGCCGAAGAGGAAGAGGCTTTGGGGTCTCGTGGTCTGCCATAATGAGAGCCCCAGGTTTGTTCCGTTTCCATTGAGATATGCCTGTGAATTCCTGATGCAAGTTTTTGCTATACATGTGAACAAGGAGTTTGAGATGGAGAGGCAGAGGAGGGAAAAGAACATCTTAAGAACGCAGACAATGCTGTGTGATATGCTGCTCAGAGATTCTGTCCCTCTCGGAATTATCACTCAGAGTCCTAACATCATGGATTTGGTTCAATGCGATGGCGCCGCACTTATTTACCAAAACAAGATTTGGCGGCTTGGGGTTACTCCGAGCGAGTCTCAGATTAATAGCATTGCTTATTGGCTCGATGATTGCCACTTAGATTCTACTGGGTTGAGTACAGATAGCCTGCATGAGGCTGGATATCCTGGAGCTCTTGCTCTTGCTGATACGGTTTGTGGTATGGCTGTTGCTAGAATTACTTCAAAGGACACACTTTTCTGGTTTCGGTCACCCACATCTTCCGACATTAGGTGGGGAGGTGCAAAGCATGAACCGGCTGACAGGGATGATGGGAGGCGAATGCATCCAAGGTCCTCATTTAAGGCATTTCTTGAGGTTGTTAAGATGAAGAGCGTGCCCTGGAGTGACCATGAGATGGATGCCATTCACTCCTTGCAGCTTATACTTCGTGGGACCTTCCGTGGTGCTGAAAAAAAAACAAAAAAGTCAACGATTGATGTTCAAATGAATGAGCTTAAGCTCGATCGAATGCTTGAGCTTCAAGTAGTTACCAACGAAATGGTTCGCTTGATTGAGACAGCGACTGTGCCGATTCTGGCAGTGGATGTCGATGGCCTCATAAATGGATGGAATATGAAAATTGCCGAATTAACTGGCCTCTCCGTTGATGAAGCTATAGGGAAGCATTTGCTCTCCCTTGTTGAGGATTCTTCTGTAGATGCCATGAAGAAGATGCTTCTTTATGCATTACAAGGCAAGGAGGAGCAAAATGTAGAATTCCAGGTAAAAACTTTTGGACCTCGACGAGATGATGGCCCAATCACTCTGGTTGTGAATGCATGTGCCAGCCGAGACATCCATGATAATGTCATTGGGGTGTGCTTTGTGGCTCAAGATGTTACCGAACATAAGATGATTGTGGATAAGTTTACGAGAATCGAGGGAGACTACGCAGCCATAGTACAGAACCCCAGCCCACTTATTCCCCCTATCTTTGGTGCTGATGAGTTCGGCTGGTGTTCCGAGTGGAATCTGGCTATGGCTAATCTCTCAGGATGGAAGAGAGATGAGGTAATTGACAAAATGCTCTTGGGAGAGGTATTTGGTGTCAACATGGCTTGTTGCCGAATGAAGAATCAAGATTTATTTGTTAATCTTTGCATTTTAATAAACAATGCAATGAGTGGCCAAGAGAAAGAGGAGACCTCTTTCAGTTTCATCAACCGAAGTGGTAGACATGTAGAGTGTTTACTGTCAGTGAGCAAGAAGATGAATGCAGAAGGAAACATCACTGGAGTAATTTGCTTTCTGCATTCTGCTAGCCATGAGCTTCAGCAAGTTATACAAGCGCAGCAGCTAACACATGAGGCAACAATTAAGCGATTAAAGGCTTTAACATATATAAGGAATGAAATTAGAAATCCTCTCTCTGGTATAATGTATACTTGGAAAAAGCTAGAGGGGACTGATTGGGGTGAAGAGCGAATGAAGATTCTTAGCACCGGTGCAAAGTGTCACTATCAGTTGAACAGGATCCTTGATGATTTGGACTTAGATAACATAATGGACAGCTGTTTGGAGCTGGAAATGAATGCGTTTACTCTGTATGACGTGGTGGTTACTGCTATAAGTCAAGTGATGCTTCCAAGTTTGGGGAAGGGAATAAGATTAGGGCATGATTTACCTGATGACTTGAAAAATCAATGTGTCTATGGGGACAGTCTAAGGCTTCAGCAAATCCTTGCTGATTTCTTGCATGTGTGTGTGAAGCATTCCCCTAGTGGTGGCCAAGTTGACATGACTGTTGGACTAAGGAAAAATAATTTGGGTGAATCTCTTCAGCTGATTAACTTGGAAATCAGGATAACACACGCAGGAAATGGAGTGCCTGAGGAATTACTCTCTCAAATGTTCGGATCCAAAGAGGAGCCTCGGGAGGAGGGAATGAGCCTTCTGGTTTGCCGAAAGCTTCTGAAGCTCATGAATGGAGATGTCCGTTATTTGAGGGAGGCAGACAAGTCTGCCTTCATCATCTCTGCAGAGCTGGCTTGCGCGTGAGTAGAAAAATTGAAGGTTCTTAGCTCCCTCCCTATGTAGCTTCCTGCTGTTTTAACTATGGAACTCTTACCTCTATGTATTAAATCAACTGTTGTGCTTATTTTGTTCTCTCTCTGAACTTTGCTGACTTATTTGGAGGAAATAAAATTTCGTGGCAGATCGGGCGGTTGCGGCAGGACCGTAGTTCCAAATAATGTATAGTTAAAATTGTATAATATATATTTTTTTTCATTGTTTGTTGATTTTTATAAAATATAATCTTAGCTTTGCTAGTTTT

Network for GWHGAAEX002956

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
PF08446.10	PAS_2	63	179	9.10E-40
PF01590.25	GAF	213	395	2.70E-33
PF00360.19	PHY	408	583	1.50E-58
PF00989.24	PAS	615	729	1.70E-22
PF00989.24	PAS	745	867	3.90E-22
PF02518.25	HATPase_c	1001	1106	2.40E-09

Protein Sequence

>GWHPAAEX002956
MSSSRPSQSSSGSSRSKQSARIIAQTTVDAKLDAEFEAMGTCFDYCQSVRTPVDEGKSEKVTAYLQHIQKGKFIQPFGCLLALDEKTFKIVAFSENAPEMLTMTSHAVPSVGDHPTLGFGTDVRSLFTSPSTAALQKALGFAEVSLLNPILVHCRTSGRPFYAIVHRVTGCLVIDFEPVKPSDVPMTAAGALQSYKLAAKAIARLQSLPDGSMKKLCSAVVEEVFELTGYDRVMAYKFHEDDHGEVYSEITKPGLEPYAGLHYPATDIPQAARFLFMKNKIRMICDCRAKHVKVFQDEKLPFDVNFCGSTLRAPHSCHLQYMENMISIASLVMAVIVNEGEDDDGNESEQNPQPKRKRLWGLVVCHNESPRFVPFPLRYACEFLMQVFAIHVNKEFEMERQRREKNILRTQTMLCDMLLRDSVPLGIITQSPNIMDLVQCDGAALIYQNKIWRLGVTPSESQINSIAYWLDDCHLDSTGLSTDSLHEAGYPGALALADTVCGMAVARITSKDTLFWFRSPTSSDIRWGGAKHEPADRDDGRRMHPRSSFKAFLEVVKMKSVPWSDHEMDAIHSLQLILRGTFRGAEKKTKKSTIDVQMNELKLDRMLELQVVTNEMVRLIETATVPILAVDVDGLINGWNMKIAELTGLSVDEAIGKHLLSLVEDSSVDAMKKMLLYALQGKEEQNVEFQVKTFGPRRDDGPITLVVNACASRDIHDNVIGVCFVAQDVTEHKMIVDKFTRIEGDYAAIVQNPSPLIPPIFGADEFGWCSEWNLAMANLSGWKRDEVIDKMLLGEVFGVNMACCRMKNQDLFVNLCILINNAMSGQEKEETSFSFINRSGRHVECLLSVSKKMNAEGNITGVICFLHSASHELQQVIQAQQLTHEATIKRLKALTYIRNEIRNPLSGIMYTWKKLEGTDWGEERMKILSTGAKCHYQLNRILDDLDLDNIMDSCLELEMNAFTLYDVVVTAISQVMLPSLGKGIRLGHDLPDDLKNQCVYGDSLRLQQILADFLHVCVKHSPSGGQVDMTVGLRKNNLGESLQLINLEIRITHAGNGVPEELLSQMFGSKEEPREEGMSLLVCRKLLKLMNGDVRYLREADKSAFIISAELACA

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K12120	PHYA	Circadian rhythm - plant	map04712

Gene Ontology

GO term	Ontology	Name
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0017006	Biological Process	protein-tetrapyrrole linkage
GO:0009584	Biological Process	detection of visible light
GO:0009585	Biological Process	red, far-red light phototransduction
GO:0018298	Biological Process	protein-chromophore linkage
GO:0009881	Molecular Function	photoreceptor activity
GO:0042803	Molecular Function	protein homodimerization activity
GO:0005515	Molecular Function	protein binding

Expression pattern

SRP	Sample	Description	FPKM
SRP064423	SRR2545914	vegetative propagation corms	86.130
SRP064423	SRR2545915	Juvenile tuber	133.740
SRP108465	SRR5643513	five period of Gastrodia elata	64.150
	SRR5643514	five period of Gastrodia elata	58.980
	SRR5643515	five period of Gastrodia elata	60.120
	SRR5643524	five period of Gastrodia elata	52.350
	SRR5643525	five period of Gastrodia elata	34.720
	SRR5643528	five period of Gastrodia elata	31.580
	SRR5643658	five period of Gastrodia elata	35.040
	SRR5643659	five period of Gastrodia elata	51.160
	SRR5643660	five period of Gastrodia elata	55.390
	SRR5643661	five period of Gastrodia elata	46.340
	SRR5643662	five period of Gastrodia elata	39.570
	SRR5643663	five period of Gastrodia elata	41.820
	SRR5643664	five period of Gastrodia elata	47.690
SRP118053	SRR6049654	Rhizomagastrodiae_C368-T07_good_1	70.870
	SRR6049655	Rhizomagastrodiae_C368-T10_good_1	40.030
	SRR6049656	Rhizomagastrodiae_C368-T07_good_1	68.440
	SRR6049657	Rhizomagastrodiae_C368-T07_good_1	83.870
	SRR6049658	Rhizomagastrodiae_C368-T04_good_1	48.850
	SRR6049659	Rhizomagastrodiae_C368-T04_good_1	53.800
	SRR6049660	Rhizomagastrodiae_C368-T01_good_1	58.250
	SRR6049661	Rhizomagastrodiae_C368-T04_good_1	70.980
	SRR6049662	Rhizomagastrodiae_C368-T01_good_1	43.960
	SRR6049663	Rhizomagastrodiae_C368-T01_good_1	37.750
	SRR6049664	Rhizomagastrodiae_C368-T10_good_1	41.260
	SRR6049665	Rhizomagastrodiae_C368-T10_good_1	41.260
SRP279888	Gastro	Gastrodia elata tuber	38.41
	Juven	Juvenile tuber	74.67
	Mother_Gastro	Mother tuber of Gastrodia elata	32.42
	Mother_Juven	Mother tuber of Juvenile	49.77