Gene detail

Detail information of GWHGAAEX003594/evm.TU.scaffold_139.4

Functional Annotation

Database	Orthologs	E value	Annotation
KOG	KOG1295	1.00E-94	Nonsense-mediated decay protein Upf3
nr	gi\|743764878\|ref\|XP_010912655.1\|	1.04E-158	PREDICTED: regulator of nonsense transcripts UPF3-like [Elaeis guineensis]
Swissprot	tr\|Q9FVW4\|RENT3_ARATH	4.00E-101	Regulator of nonsense transcripts UPF3
trEMBL	tr\|D7TGS2\|D7TGS2_VITVI	2.00E-148	Putative uncharacterized protein {ECO:0000313\|EMBL:CBI29694.3}
TAIR	AT1G33980	1.00E-94	Smg-4/UPF3 family protein

Location And Transcript Sequence

Scaffold	Start	End	Strand
GWHAAEX00000135	48722	92179	+

Transcript Sequence
>GWHTAAEX003594 CAGAAACCGCTGCACCAAAGGGCACAAAATGCAAAATTTTCCATTTCATGTTTTCATTTCGCTGGTTAATCTATCTCATGAACTGCATCAGTTTGCTCTATATGGCGAAACGAAACCCTAATTGAGGAAACCATCCCCAATTCATCATTAGTAACCACGACGCCAATCGTCGTGAAAGATATGTGATTTCCGTGATTCTTTATCCATTTCGGTGGGAATACTCCCTCGCTGTTTAGGCTGACATGAAGGATCCCTTAGAAAGAACGAAAGTAGTACTACGGCACTTGCCGCCTTCGCTCACTGAGCCGGTTCTGATGGAGCAGATCGACGGCAAATTTTCTGGTCGGTACAAGTGGTTCTGTTTTCGGTCGGGGAAGGAAAGCCAAAAGAATGGAAGGTATGCTCGAGCTTACATCGATTTCAACCGGCCTGCAGATGTGTTTGAGTTTGCTGAGTTCTTTGATGGTCATGTATTTGTCAATGAAAAAGGCACTCAGTTTAAAGTTCTGGTGGAATATGCTCCATCTCAAATCATACCAAAGAATTGGGCTAAGAAAGATGGTCGTGAAGGGTCTATATTCAAGGATCCTGACTACATGGAATTTCTTGAGCACCTTGCAAAGCCTGTGGATAATCTTCCTAGTGCTGAAATTCAGTTGGAAAGGAGGGAGGCTGAAAGAGTTGGTGTAAAAGAGACACCTATAATAACACCTCTGATGGATTTTGTTAGGCAGAAAAGGGCCTCCACAAGTGGTTCTCAGAGAACGTCCTGCAATGTAAAACCAAGTCGAAGAGCTGTAGTTGCTGGTAATAGCTCTACTCATTCCTCTAAACGTAGTTCCGATAGGCGAAGAGGGACCTCCTTAAAGTATGTTTCAAAAGATAGAACAAGGAATATTTCTGGCAAGGAAAAGCCAACTTATATATTAGTGTCAAGGAGGGATGAACAACATAATGAGAAATTCAATTTTTCATCTTCAATTATCAAAGATGGCATTCAGAATGAAACAGGTTTGTGTACAAAAGAAATTGTATCTGGAATGCCTGTTACTGTAGAAACCGGAAAAAAGGCTCTGTTGCTTTTGAAAGGAAACGAACGTGAAGGCTCTCATATTCAGCGGTTTGAAGTGCCTGGAAGAATTATTAAAAGCATATTATCTAACAAGGAAGGGCGTCAGCTGTCAAAATTGCATCCAGATGTTCAAATGATTACAGGTAATACAGAGAAGGACAAACACCCTTCTCGGCCACCCATCCATCCAAATTTAAAGGAACATTCTTCTGGTTTGCTTCGCCCATATGCTTCTGAAGCTGATGCTAAAACACCAAAAGTTGATAAGGTTGCTTCAAGTGAATTGCACACTTCTGCTTTTCTTAATGATAATAAGTTTGAAAAGCGTACGAAGAATAAAGACAGGCCTGATCGTGGGGTATGGGCACCCCTTCGCCGCACTGATGGTTTACATGGACAGAGCACTAATTTGTTATCTATTAATGAGTTACCTGGGGGTCATGGAAACATTAAATCGGACACTCCTAATGGAAATAAAAGCTCAGAATCTAAAATTCTTGGAGGTGGACGAAGCCATCACACTTCTTTGGATAATAGTGCACATCGGCATGTAGGTCGTCGTGGAATGCAACATGGTTCTAAGGATTTGGATGGCTCTGTGAGTACAATGGAGGGGAAGTCATCAAAAAGAGGTCCTAATCCATATGAAAAACAAGTATGGGTTCAAAAGTCAGGCTCTGCATCATGAGTTTTCCCTGTGATGTTTTCTTCTTCCTTGCCCTTGCATTGGGTACATCGCCATCCTTCCCCATTGGATTTCTTCTCCAGCCGATGACAGGAAATTGCGCTTCCAGCATGCATATTCGCGTCCAGCTCTCTGCAATTGTTCGGCGCTGACAAATGATTTATCGCGCTGGCATCCATTTTCTGCCTCTTACATGAATTC

Network for GWHGAAEX003594

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
PF03467.14	Smg4_UPF3	6	167	6.40E-49

Protein Sequence

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K14328	UPF3, RENT3	RNA transport	map03013
K14328	UPF3, RENT3	mRNA surveillance pathway	map03015

Gene Ontology

GO term	Ontology	Name
GO:0003676	Molecular Function	nucleic acid binding

Expression pattern

SRP	Sample	Description	FPKM
SRP064423	SRR2545914	vegetative propagation corms	75.270
SRP064423	SRR2545915	Juvenile tuber	61.330
SRP108465	SRR5643513	five period of Gastrodia elata	54.940
	SRR5643514	five period of Gastrodia elata	56.380
	SRR5643515	five period of Gastrodia elata	52.550
	SRR5643524	five period of Gastrodia elata	59.300
	SRR5643525	five period of Gastrodia elata	70.280
	SRR5643528	five period of Gastrodia elata	53.260
	SRR5643658	five period of Gastrodia elata	77.550
	SRR5643659	five period of Gastrodia elata	78.550
	SRR5643660	five period of Gastrodia elata	83.380
	SRR5643661	five period of Gastrodia elata	76.990
	SRR5643662	five period of Gastrodia elata	83.000
	SRR5643663	five period of Gastrodia elata	80.050
	SRR5643664	five period of Gastrodia elata	85.150
SRP118053	SRR6049654	Rhizomagastrodiae_C368-T07_good_1	59.300
	SRR6049655	Rhizomagastrodiae_C368-T10_good_1	53.830
	SRR6049656	Rhizomagastrodiae_C368-T07_good_1	57.170
	SRR6049657	Rhizomagastrodiae_C368-T07_good_1	59.740
	SRR6049658	Rhizomagastrodiae_C368-T04_good_1	61.420
	SRR6049659	Rhizomagastrodiae_C368-T04_good_1	74.500
	SRR6049660	Rhizomagastrodiae_C368-T01_good_1	57.930
	SRR6049661	Rhizomagastrodiae_C368-T04_good_1	55.850
	SRR6049662	Rhizomagastrodiae_C368-T01_good_1	55.100
	SRR6049663	Rhizomagastrodiae_C368-T01_good_1	56.100
	SRR6049664	Rhizomagastrodiae_C368-T10_good_1	50.030
	SRR6049665	Rhizomagastrodiae_C368-T10_good_1	50.030
SRP279888	Gastro	Gastrodia elata tuber	68.88
	Juven	Juvenile tuber	75.26
	Mother_Gastro	Mother tuber of Gastrodia elata	56.74
	Mother_Juven	Mother tuber of Juvenile	57.93