Gene detail

Detail information of GWHGAAZE006390

Functional Annotation

Database	Orthologs	Annotation
Nr	XP_002279304.2	PREDICTED: regulator of nonsense transcripts 1 homolog isoform X2 [Vitis vinifera]
Swissprot	tr\|Q9FJR0\|RENT1_ARATH	Regulator of nonsense transcripts 1 homolog
trEMBL	tr\|D7TTH5\|D7TTH5_VITVI	Putative uncharacterized protein {ECO:0000313\|EMBL:CBI33955.3}
TAIR10	AT5G47010.1	RNA helicase, putative

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000002	gene	24810321	24832215	+
GWHAAZE00000002	mRNA	24810321	24832215	+
GWHAAZE00000002	exon	24810321	24810734	+
GWHAAZE00000002	exon	24812413	24812664	+
GWHAAZE00000002	exon	24813006	24813176	+
GWHAAZE00000002	exon	24813327	24813377	+
GWHAAZE00000002	exon	24813632	24813724	+
GWHAAZE00000002	exon	24813883	24813978	+
GWHAAZE00000002	exon	24814654	24814704	+
GWHAAZE00000002	exon	24814779	24814897	+
GWHAAZE00000002	exon	24816436	24816544	+
GWHAAZE00000002	exon	24817178	24817300	+
GWHAAZE00000002	exon	24817375	24817446	+
GWHAAZE00000002	exon	24817702	24817773	+
GWHAAZE00000002	exon	24817880	24817946	+
GWHAAZE00000002	exon	24818794	24818936	+
GWHAAZE00000002	exon	24819027	24819098	+
GWHAAZE00000002	exon	24819177	24819305	+
GWHAAZE00000002	exon	24819559	24819622	+
GWHAAZE00000002	exon	24819713	24819780	+
GWHAAZE00000002	exon	24821382	24821537	+
GWHAAZE00000002	exon	24821911	24822024	+
GWHAAZE00000002	exon	24822103	24822201	+
GWHAAZE00000002	exon	24822311	24822388	+
GWHAAZE00000002	exon	24827511	24827645	+
GWHAAZE00000002	exon	24827906	24827980	+
GWHAAZE00000002	exon	24828085	24828202	+
GWHAAZE00000002	exon	24828448	24828815	+
GWHAAZE00000002	exon	24829202	24829264	+
GWHAAZE00000002	exon	24829354	24829425	+
GWHAAZE00000002	exon	24829555	24829686	+
GWHAAZE00000002	exon	24831108	24831227	+
GWHAAZE00000002	exon	24831643	24831789	+
GWHAAZE00000002	exon	24832156	24832215	+
GWHAAZE00000002	CDS	24810321	24810734	+
GWHAAZE00000002	CDS	24812413	24812664	+
GWHAAZE00000002	CDS	24813006	24813176	+
GWHAAZE00000002	CDS	24813327	24813377	+
GWHAAZE00000002	CDS	24813632	24813724	+
GWHAAZE00000002	CDS	24813883	24813978	+
GWHAAZE00000002	CDS	24814654	24814704	+
GWHAAZE00000002	CDS	24814779	24814897	+
GWHAAZE00000002	CDS	24816436	24816544	+
GWHAAZE00000002	CDS	24817178	24817300	+
GWHAAZE00000002	CDS	24817375	24817446	+
GWHAAZE00000002	CDS	24817702	24817773	+
GWHAAZE00000002	CDS	24817880	24817946	+
GWHAAZE00000002	CDS	24818794	24818936	+
GWHAAZE00000002	CDS	24819027	24819098	+
GWHAAZE00000002	CDS	24819177	24819305	+
GWHAAZE00000002	CDS	24819559	24819622	+
GWHAAZE00000002	CDS	24819713	24819780	+
GWHAAZE00000002	CDS	24821382	24821537	+
GWHAAZE00000002	CDS	24821911	24822024	+
GWHAAZE00000002	CDS	24822103	24822201	+
GWHAAZE00000002	CDS	24822311	24822388	+
GWHAAZE00000002	CDS	24827511	24827645	+
GWHAAZE00000002	CDS	24827906	24827980	+
GWHAAZE00000002	CDS	24828085	24828202	+
GWHAAZE00000002	CDS	24828448	24828815	+
GWHAAZE00000002	CDS	24829202	24829264	+
GWHAAZE00000002	CDS	24829354	24829425	+
GWHAAZE00000002	CDS	24829555	24829686	+
GWHAAZE00000002	CDS	24831108	24831227	+
GWHAAZE00000002	CDS	24831643	24831789	+
GWHAAZE00000002	CDS	24832156	24832215	+

Transcript Sequence
>GWHTAAZE006398 ATGGATTCTCAGGCCAACAGCAACACCAAACTCTACGAAACATCCTCACAGCCAGATACCGGCCAACAACAAGACGCTTACACCTTCCTCGAATTCAACACCCAAGGCGCCGGCGAAGAAGAAGAAGACTTCAATTACCACGAATACCAACAACTCTCCCAGCCAATTCGCTCTTCTCTATGGCCCACTCCCTCCGATTCCGTGGCCGATGCCACCGATCGGGCCTTGTCCGATCAACAGTCCGATGCCTCGCCGGTGTCTGTGAGCTCCGGGAAGGGGAGAGCCGGTGGTGGTAATCAGGCGGCGGTGGATGCCCTTGCCGCCGGAATGAGTGGCTTGAACTTCGAGGAGAGTGCTGGGGATGAGGGGGATGGATATGAGTATGGGAAGGGGATTTTACGACGGAGCATGCGTGTGCGGGCTAAACACAAGGAAGTCTGTCTTCATAAAGACAGTCCATTGGGAGAAACAATTCTGGAGTGCTACAATTGTGGATGTCGAAATGTTTTCCTTCTTGGATTCATCTCTGCCAAGGCAGAAAGTGTTGTCGTTCTTCTTTGCAGGGAACCCTGTCTTAGTGTCAATGCTTTGAAGGACATGAATTGGGACCTGAGCCAATGGTGTCCTCTTATTGATGATAGATGTTTCTTGCAATGGCTTGTTAAGGTCCCATCCGAGCAGGAGCAGTTGAGGGCACGCCAGATCAGTGCTCAGCAGATAAATAAGGTAGAGGAACTTTGGAAGACAAATCCTGATGCTACCCTAGAAGATCTTGAGAAGCCTGGTGTAGATGACGAACCCCAGCCAGTAGCCTTAAAGTATGAAGATGCCTATCAGTATCAAAATGTATTTGCACCGCTTATCAAACTTGAAGCTGACTACGATAAAATGATGAAAGAATCTCAAAGCAAAGACAATCTAACGATTCGGTGGGATATTGGCCTTAACAAGAAGCGTGTTGCATACTTTGTTTTTCCGAAGGAAGACAATGAATTGCGCCTTGTACCTGGTGATGAGTTGCGGCTTCGTTACTCAGGCGATGCAGCTCATCCAGCTTGGCAATCAGTGGGACATGTGATAAAACTAACAGCTCAAGAGGAGGTTGCACTTGAACTTCGTGCCAGCCAGGGAGTTCCTGTTGATGTCGTCCATGGTTTTAGCGTTGATTTTGTTTGGAAGAGCACCAGTTTTGATCGAATGCAGGGTGCAATGAAGACTTTTGCGGTGGATGAAACAAGTGTCAGCGGGTACATTTACCATCACTTGTTAGGCCATGAAGTTGAGGTTCAGATGGTCCGTAATGCGCTACCTCGTCGATTTGGTGCCCCGGGTCTTCCAGAGCTTAATGCATCTCAAGTTTTTGCTGTAAAAAGTGTTCTTCAGAAGCCCATAAGCTTGATTCAAGGACCTCCTGGCACTGGAAAAACAGTCACTTCTGCAGCAATTGTTTATCATATGGCAAAACAAGGCCAAGGACAGGTTTTGGTATGTGCTCCAAGTAATGTGGCTGTAGACCAACTAGCTGAAAAAATAAGTGCTACTGGCTTGAAGGTGGTTAGGCTCTGTGCTAAGTCAAGGGAAGCTGTAAGTTCCCCTGTGGAGCATTTAACACTTCATTATCAGGTTAGGCATCTTGACACATCCGAAAAGAGTGAACTTCACAAGTTACAGCAACTTAAAGATGAACAAGGAGAGTTGTCCAGTAGTGATGAGAAAAAATATAAAGCTCTGAAGCGTGCAACAGAGAGGGAGATATCTCAGAGTGCTGATGTTATATGCTGCACCTGTGTTGGTGCTGGAGATCCTCGTTTGGCAAATTTTAGATTCCGCCAGGTGCTTATTGACGAGTCTACTCAAGCAACTGAGCCCGAGTGTCTCATTCCACTGGTTCTCGGGGTGAAACAGGTTGTTCTTGTTGGGGATCATTGCCAGCTTGGTCCAGTCATTATGTGCAAAAAAGCAGCTCGTGCTGGGTTAGCACAGTCTCTCTTTGAGCGCCTTGTACTACTTGGTGTAAAGCCTATTAGATTGCAGTTTACTCTTTTAGACTTCACTACTTCAGAGATAATCCTGAATAGTCATAACGTGAAAAGGAGAGTCTACTCACTTGTTTGTTTGGGACTTGATACTGTTGGGGATTCTGGGATTCTGGGATTATGGAAGTGGGTTCAATATCGCATGCATCCGTGCCTCTCAGAATTCCCTTCTAACAACTTTTATGAAGGTACACTTCAAAATGGAGTGACCATTAACGAAAGGCAATCACCAGGCATTGATTTCCCTTGGCCTGTGCCAAACCGTCCCATGTTCTTCTATGTACAGATGGGACAAGAGGAGATAAGTGCTAGCGGCACATCTTATCTAAACAGGACCGAGGCTGCAAATGTTGAGAAAATTGTGACTACTTTCTTAAAGAGCGGTGTAGTTCCGAGTCAGATAGGGGTCATAACACCGTATGAAGGTCAGCGTGCCTACATTGTAAACTATATGTCGAGGAATGGTGCTCTGAGGCAGCAACTTTACAAGGAAATTGAGGTTGCAAGTGTAGATTCATTCCAAGGAAGGGAAAAAGATTACATTATCTTGTCTTGTGTGAGGAGTAATGAACACCAGGGTATTGGATTCCTTAACGATCCACGGAGGCTAAATGTTGCACTAACACGCGCTCGTTATGGTATTGTCATTCTGGGAAATCCTAAAGTTCTAAGTAAACAACCTTTGTGGAATGGTTTATTAACACACTACAAGGAGCATGAGTGTTTGGTGGAAGGACCTTTGAATAATTTAAAGCAGAGTATGGTTCAATTTCAAAAGCCCAAAAAGATCTACAACGATCGCAGACCTTTCTTTGGTGGTGGACCTGGAATAGTACCAAATGATAGTTTTGGATCTATTTCCTCGCCTAGCCTAAATGCTGATAGGAGGAGCAGTCGTTCTAGAGGTTCGTACATGCCACTAGGCCCAGCCAATGGTACCCATAAACCTGGATTGCACCCGGCTGGTGATCCAGTGCCTAGGGTTCCGCTTCCACCTTATCATGGTGGCCCACAGCCATATGCAATTCCTACTCGTGGTGCTGTACATGGGCCTGTTGGTGCTGTTCCTCATGTTCCTCAGCCGGGAAGTCGGGGTTTTGGTGCTGGACGTGGTAATGCTGGTGCTCCTATTGGCAGTCATCTCCCCCACCAGCAAGGCTCTCAACAATCTATCGGAAGTCTTGGGTCTAATTTCAATTTTCCTGGTTTGGAAAATCCTAATAGCCAGCCATCTGTTGGTGGTCCACTATCTCAACCGGGATATGTTTCCAATATGGGAGTTCAAGGACCAAGCCAAACATTTCGCGATGGGTTCTCTATTGGTGGCATGTCTCAGGAGTTCTTAGGTGATGATTTTAAAAGTCAGGGATCACATGTTCCATATAATGTTGCGGACTTCTCCACACAGGCTTCTCAGGGTGGATATGGTGTGGATTATGCTACGCAGGGAGCACAAGGTGGCTTCCCCACTAGCTTCTTGAATCAGAATTCTCAAGCCGGATATTCTCGCTTCGGTACAGGAAATGATTTCATGTCTCAGGACTACATGGCACACGGTTCACAAGGCCTTTTTACACAAGTTGGATTCAATGATCCATCACAAGATGATGCTTCTCAGAACCACTTTGGTGTTACCAATGCCAATCAACTTCAGTCTCAGGGTGTGTTGAATCCTCTCTACTCCCAGCCGTTTCCCCACTACAACACACAGCTGATAAACATGCAGGCCCCCAGCAGCAGCAACAACAACAACAGCCTCAAGCCCAGCAGGGCCAGAGCTCCCAAAACCAGAAACTCCACTACAATGCGTATGGGAGAAAGGCACAAACGTATGTATGTTACCCTTTCAGCGCTTCCTGACATGTAA

Network for GWHGAAZE006390

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
PF09416.11	UPF1_Zn_bind	139	250	5.70E-50
PF18141.2	DUF5599	302	391	7.30E-30
PF04851.16	ResIII	451	526	3.20E-05
PF13086.7	AAA_11	550	650	1.10E-28
PF13087.7	AAA_12	723	899	2.50E-53

Protein Sequence

>GWHPAAZE006394
MDSQANSNTKLYETSSQPDTGQQQDAYTFLEFNTQGAGEEEEDFNYHEYQQLSQPIRSSLWPTPSDSVADATDRALSDQQSDASPVSVSSGKGRAGGGNQAAVDALAAGMSGLNFEESAGDEGDGYEYGKGILRRSMRVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFISAKAESVVVLLCREPCLSVNALKDMNWDLSQWCPLIDDRCFLQWLVKVPSEQEQLRARQISAQQINKVEELWKTNPDATLEDLEKPGVDDEPQPVALKYEDAYQYQNVFAPLIKLEADYDKMMKESQSKDNLTIRWDIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPVDVVHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNALPRRFGAPGLPELNASQVFAVKSVLQKPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGVKPIRLQFTLLDFTTSEIILNSHNVKRRVYSLVCLGLDTVGDSGILGLWKWVQYRMHPCLSEFPSNNFYEGTLQNGVTINERQSPGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLKSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGPLNNLKQSMVQFQKPKKIYNDRRPFFGGGPGIVPNDSFGSISSPSLNADRRSSRSRGSYMPLGPANGTHKPGLHPAGDPVPRVPLPPYHGGPQPYAIPTRGAVHGPVGAVPHVPQPGSRGFGAGRGNAGAPIGSHLPHQQGSQQSIGSLGSNFNFPGLENPNSQPSVGGPLSQPGYVSNMGVQGPSQTFRDGFSIGGMSQEFLGDDFKSQGSHVPYNVADFSTQASQGGYGVDYATQGAQGGFPTSFLNQNSQAGYSRFGTGNDFMSQDYMAHGSQGLFTQVGFNDPSQDDASQNHFGVTNANQLQSQGVLNPLYSQPFPHYNTQLINMQAPSSSNNNNSLKPSRARAPKTRNSTTMRMGERHKRMYVTLSALPDM

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K14326	UPF1, RENT1	RNA transport	map03013
K14326	UPF1, RENT1	mRNA surveillance pathway	map03015

Gene Ontology

GO term	Ontology	Name
GO:0000184	biological_process	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO:0005737	cellular_component	cytoplasm
GO:0003677	molecular_function	DNA binding
GO:0004386	molecular_function	helicase activity
GO:0005524	molecular_function	ATP binding
GO:0008270	molecular_function	zinc ion binding
GO:0016787	molecular_function	hydrolase activity

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	34.426
	SRR3591706	second leaf	21.658
	SRR3591707	mature leaf	28.068
	SRR3591708	Shoot apex	25.006
	SRR3591709	Stem	34.736
	SRR3591710	White floral bud	37.008
	SRR3591711	White flower	41.893
	SRR3591712	Green floral bud	29.161
	SRR3591713	Yellow flower	32.508
SRP173429	SRR8316895	Juvenile bud stage	16.395
	SRR8316896	Juvenile bud stage	20.346
	SRR8316897	Juvenile bud stage	10.607
	SRR8316894	Third green stage	9.827
	SRR8316900	Third green stage	22.974
	SRR8316901	Third green stage	20.115
	SRR8316898	Complete white stage	9.008
	SRR8316899	Complete white stage	27.563
	SRR8316903	Complete white stage	23.179
	SRR8316902	Silver flowering stage	12.760
	SRR8316904	Silver flowering stage	19.556
	SRR8316905	Silver flowering stage	9.612
	SRR8316906	Gold flowering stage	27.174
	SRR8316907	Gold flowering stage	25.988
	SRR8316908	Gold flowering stage	29.903
SRP132670	SRR6706286	Control	28.100
	SRR6706287	Light intensity 50%	28.074
	SRR6706288	Light intensity 20%	28.916
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	8.146
	CNS0095593	Slightly white alabastrum(diploid) 2	8.122
	CNS0095594	Slightly white alabastrum(diploid) 3	8.542
	CNS0095595	Whole white alabastrum(diploid) 2	7.853
	CNS0095596	Whole white alabastrum(diploid) 3	7.743
	CNS0095597	Whole white alabastrum(diploid) 4	7.116
	CNS0095598	Silvery flower (diploied) 1	15.377
	CNS0095599	Silvery flower (diploied) 2	13.892
	CNS0095600	Silvery flower (diploied) 3	30.056
	CNS0095601	Golden flower (diploid) 1	10.823
	CNS0095602	Golden flower (diploid) 2	31.179
	CNS0095603	Golden flower (diploid) 3	29.259
	CNS0095604	Slightly white alabastrum(tetraploid) 1	12.549
	CNS0095605	Slightly white alabastrum(tetraploid) 2	8.582
	CNS0095606	Slightly white alabastrum(tetraploid) 3	33.473
	CNS0095607	Whole white alabastrum(tetraploid) 1	8.658
	CNS0095608	Whole white alabastrum(tetraploid) 2	6.968
	CNS0095609	Whole white alabastrum(tetraploid) 3	20.914
	CNS0095610	Silvery flower (diploied) 1	32.896
	CNS0095611	Silvery flower (diploied) 2	32.093
	CNS0095612	Silvery flower (diploied) 3	29.370
	CNS0095613	Golden flower (tetraploid) 1	13.077
	CNS0095614	Golden flower (tetraploid) 2	26.040
	CNS0095615	Golden flower (tetraploid) 3	31.593
CRA001975	CRR073297	Stem 1	25.157
	CRR073298	Stem 2	22.359
	CRR073299	Stem 3	19.441
	CRR073300	Leaf 1	23.956
	CRR073301	Leaf 2	20.504
	CRR073302	Leaf 3	15.416
	CRR073303	Juvenile bud 1	15.455
	CRR073304	Juvenile bud 2	13.271
	CRR073305	Juvenile bud 3	29.472
	CRR073306	Third green 1	14.772
	CRR073307	Third green 2	11.232
	CRR073308	Third green 3	16.282
	CRR073309	Second white 1	11.429
	CRR073310	Second white 2	11.150
	CRR073311	Second white 3	16.521
	CRR073312	Silver flowering 1	14.881
	CRR073313	Silver flowering 2	14.631
	CRR073314	Silver flowering 3	12.679
	CRR073315	Gold flowering 1	7.969
	CRR073316	Gold flowering 2	15.636
	CRR073317	Gold flowering 3	9.425
	CRR073318	Tawny withering 1	18.415
	CRR073319	Tawny withering 2	13.996
	CRR073320	Tawny withering 3	14.222