Gene detail

Gene detail information of Glyur000047s00004016.1

Functional Annotation

Database	Orthologs	E value	Annotation
TAIR	AT5G47010.1	0	RNA helicase, putative
NR	XP_003517385.1	0	PREDICTED: regulator of nonsense transcripts 1 homolog [Glycine max]
COG	NP_214409.1	3.00E-64	DNA helicase [Aquifex aeolicus VF5]
Swissprot	tr\|Q9FJR0\|RENT1_ARATH	0	Regulator of nonsense transcripts 1 homolog
trEMBL	tr\|I1J9N5\|I1J9N5_SOYBN	0	Uncharacterized protein {ECO:0000313\|EnsemblPlants:GLYMA01G41110.1}

Sequence

Transcript Sequence

>Glyur000047s00004016.1
CGCTCGCTCATNCCCCCGGTTTCCTTCGTAGTCGTACTCCTCCTTCTACGTGTCCCATTCTCATCTCATGTGTTTGAGTGTATCTCTCTTCGTTCTCTATTTTCTCTTCCTTTCCTCACACCCAACCCTAACCCTAATCATAAAAATTCCTAACCCCTTTCCTTCCATCCTCACAAACCAAACACAAGTACGCACTCTCTTAAAACCCTGACTCGAACACTGAGAAGATCGCGCACCACTTGATTCCATCGATGGACTCACAGCAGAACAATCTATTCGAGACCGCTTCGCAACCCGACACGGGCAACGACGCTTACACTTTCCTCGAATTCAACACTCAGGGCGAGGATTTCGACTACCCGGAGTTCCGAGACCCGATTAGGTCACCGGTGGCATGGCCCACGCCCTCCGATTCACTTGCTGACCCGTCCGAACGCGGCGGAGCCGGGTCGGATCACCAGTCAGATGCCTCCCCCGTCTCGGCGGCTCCCGGAAGCGCGACGAAAGGCCGGTCCGGAAGTGGCGGAGGTGGGAGCAGCCAGATGGTGGATTCACTGGCTGCGGGGATGAGCGGGTTGAATTTCGAGGACACTGGGGATGATGATAATTATGAGTATGGCAAAGGGGATTTCACTGAACATGCTTGCCGTTATTGCGGGGTCTCCAATCCAGCTTGTGTAGTTAGGTGCAATGTACCTTCCTGTCGCAAATGGTTCTGTAATTCGCGGGGAAACACTTCCGGATCGCATATCGTCAATCACCTGGTTCGAGCAAAACACAAGGAAGTCTGTCTACACAAAGATAGTCCCTTGGGAGAAACAATTCTTGAATGCTACAACTGCGGGTGTCGTAATGTGTTTCTCCTTGGATTTATTTCTGCAAAGACAGAAAGCGTAGTTGTTCTTCTTTGTCGCGAACCTTGCTTGAGTATCCCATCTGAACAGGAGCAGTTAAGGGCACGCCAAATAAGTGCACAGCAAATAAATAAGGTGGAAGAGTTGTGGAAAACAAACCCTGATGCTTCTTTTGAGGACCTTGAGAAGCCTGGTGTAGATGATGAACCTCAGTCCGTGGCTTTGAAATATGAAGATGCATATCAGTATCAAAATGTATTTGCACCTCTTATTAAGCTTGAAGCTGATTATGATAAGATGATGAAAGAATCACAAAGCAAGGACAATGTCACAATTCGATGGGATATTGGTCTTAATAAGAAGCGTGTTGCATACTTTGAAGATAACGAGTTGCGGCTTGTACCTGGTGATGAATTACGATTGCGTTATTCTGGTGATGCTGCACATCCCGCATGGCAGTCAGTGGGTCACGTGATTAAGCTAACTGCACAAGAGGAGGTTGCTCTGGAGCTTCGTGCTAGTCAGGGGGTTCCAGTTGATGTTAACCATGGTTTCAGTGTTGATTTTGTCTGGAAGAGCACCAGCTTTGATAGGATGCAAGGAGCTATGAAAACCTTTGCTGTAGACGAGACAAGTGTTAGTGGGTATATATATCATCATTTATTGGGTCATGAAGTTGAGGTTCAGATGGTACGTAATGCATTGCCTCGCCGCTTTGGTGCACCAGGGCTTCCAGAGCTGAATGCATCTCAAGTGTATGCTGTCAAAAGTGTTCTTCAGAGGCCTATTAGTTTGATTCAAGGACCACCCGGAACTGGTAAGACTGTGACTTCTGCAGCACTTGTATATCACATGGCCAAACAAGGTCAGGGACAGGTTTTGGTTTGTGCACCCAGTAATGTAGCTGTGGACCAGTTGGCTGAAAAGATAAGTGCTACTGGATTGAAGGTTGTTAGGCTTTGTGCAAAGTCAAGGGAAGCTGTGAGTTCACCGGTTGAGCATTTAACTCTTCACTATCAGGTTCGACATCTTGACACATCTGACAAAAGTGAACTTCATAAGTTACAACAGCTGAAGGATGAGCAAGGAGAACTTTCCAGCAGTGATGAGAAAAAATACAAAGCTCTTAAGCGAGCAACAGAGAGGGAGATTTCTCAGAGTGCTGATGTGATATGNTGTACATGTGTTGGTGCTGGAGATCCTAGGCTTGCAAATTTTAGATTCCGTCAGGTACTTATTGANGAGTCCACTCAAGCAACAGAACCTGAGTGCCTCATTCCTTTAGTTCTTGGAGCAAAGCAGGTTGTTCTTGTTGGTGATCATTGTCAGCTTGGTCCCGTTATTATGTGCAAGAAAGCAGCTCGTGCTGGGTTAGCACAGTCACTTTTTGAACGCCTTGTTCTACTTGGTGTCAAACCAATTAGGTTGCAGGTTCAGTACCGTATGCATCCATGCCTTTCAGAATTTCCCTCAAACAGCTTCTATGAAGGCACCCTGCAAAATGGAGTCACTGTTAATGAGAGGCAATCTTCAGGAATTGATTTTCCATGGCCTGTACCAAACCGTCCCATGTTTTTTTATGTTCAGATGGGACAAGAAGAGATAAGTGCTAGTGGAACATCTTATTTAAATAGGACCGAGGCTGCAAATGTTGAGAAGATTGTAACCACTTTCTTAAAAAGTGGTGTGGTTCCTAGTCAGATTGGTGTTATAACACCTTATGAGGGGCAAAGGGCTTATATTGTGAACTATATGTCAAGAAATGGCGCTCTTAGGCAGCAACTTTACAAAGAGATNGAGGTTGCTAGTGTTGATTCCTTTCAAGGAAGGGAGAAAGACTATATCATTCTATCATGTGTTAGAAGTAATGAGCATCAGGGCATTGGATTCCTGAATGATCCNAGGAGGCTCAATGTTGCTCTTACACGAGCAAGATTTGGTATTGTTATTCTGGGAAACCCTAAAGTTCTGAGCAAGCAGCCTCTGTGGAATGGTTTGTTGACTCACTACAAGGAACATGAATGTTTAGTTGAAGGGCCTTTAAATAACTTGAAGCAGAGTATGGTTCAGTTCCAGAAACCCAAGAAGATTTACAATGAACGAAGGCTTTTTTATGGGGGTGGACCTGGAGTTGCGGCTAATGATAATTTTGGTTCCGTTGGCTCTAGCACTGGCACAAGTTCAGATAGGAGGAGCAGCCGAGGAAGGGGATCTTATATGCCTCCTGGCCCACCAAATGGAACCCATAAACCTGGAGTGCATCCTGCTGGGTACCCTGTGCCAAGGGTGCCCATGCCTCCTTTTCATGGTGGTCCCCAATCTCAACCNTATGCCATTCCATCTCGTGGGGCTGTTCATGGACCTGTTGGGGCAGTTCCTCATGTTCCATCTCCAGGGAGTCGGGGTTTTGGGGCTGGGAGAGGTAATTCCAGTGCTCCAATTGGCAATCATCTTCCGCACCAACAAGGCACGCAACAGCCTATTGGGAATCTTGGATCCACATTTAACTTCCCTGCTCTAGAGAACCCTAACAGCCAGCCATCCGTTGGTGGTCCATTATCTCAACCTGGGTTCGCCAATAATATGCCAGTCCAAGGGGCGGGCCAGTCTTTTCGAGATCAATTTTCTGTTCCTGGNATGTCTCAGGACTTTTTGGGTGATGACTTCAAAAGCCAGGGATCTCATGTTCCTTATAATGTAACTGATTTCTCTACACAGGCTTCTCAAAGTGGATATGCTGTTGATTATGCAACACAAGNAGCACAAGGTGGATTCCCAGGGAACTTTCTTAACCAGAATTCTCAAGCTGGATATTCACGTTTTGGTTCTGGAAATGACTTTATGTCTCAGGACTACATGGCCCATGGATCCCAGGGTCTTTTCACTCAGGTNGGATTCAGCGATCCCTTGCAAGATGATGCAACACAGAGCCATTTCAATGTGGCTAATGCCAACCCTCTTCAGTCGCAGATGAATTCTCTCTACTCCCAGCCTTTTGCTCATTACAACACACAGCCGCTGAACATGCAGGCTTCCCAACAGCAGCCTCAGGGTCAGAGCTCCCAAAATCAGAAAATTCACTATAANGGTTGAGGAACTTTAGGAGCTTAATGTGGCTTTAATGGGTTATAGTCTTTGCAATCAGCAAACCGGGTTTGTGCCTGTCTTGTGCGCTGATATCTGTTTGCANGAGACATCCGAAGAATTGCCTTCTTGTGATACCCATACTGAAGTGATTGGTGTGTGAGTTGCGTTGGTGGAATTGTGGNGCATTAAGATTCGGTTAGGCACATTCCGGGCTGAAAAATGAAAAGATAACCCCGTTACCTTACTGAAGTTTTGTGTTGTTTGGGATTAAGGTGAAATTCGAGAAAGCNTTACATGGAATGGTTTTGTCGAAAGGGTTTCGATCTTGAATCAGAAGAGGCGGTTTACAATGTTGTCGGTGAAATACTGAATATAGTAATCCATACGGCACCAAAAATCGCCAAAAGGGAAGTATTTGTATAGAAGACAGGGATGCGGTGAACCCTTTCAGCTCTTCCTGACATGTAATTATTATACTCGATATATTTAAAGACCTAACGATGATATGTTGGAAAGCTATACTAAGCAACTATTGCCACTCACAATTTCTGTGGCATACAAAGGTGTGATGATTGTTTTTCATGTAAATTAGGTTTTTCTTTTTCAGTGCAAGAGATGAGTGCTTGACTT

Protein Sequence

>Glyur000047s00004016.1
MDSQQNNLFETASQPDTGNDAYTFLEFNTQGEDFDYPEFRDPIRSPVAWPTPSDSLADPSERGGAGSDHQSDASPVSAAPGSATKGRSGSGGGGSSQMVDSLAAGMSGLNFEDTGDDDNYEYGKGDFTEHACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFISAKTESVVVLLCREPCLSIPSEQEQLRARQISAQQINKVEELWKTNPDASFEDLEKPGVDDEPQSVALKYEDAYQYQNVFAPLIKLEADYDKMMKESQSKDNVTIRWDIGLNKKRVAYFEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPVDVNHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNALPRRFGAPGLPELNASQVYAVKSVLQRPISLIQGPPGTGKTVTSAALVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSDKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVIXCTCVGAGDPRLANFRFRQVLIXESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGVKPIRLQVQYRMHPCLSEFPSNSFYEGTLQNGVTVNERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLKSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEXEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARFGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGPLNNLKQSMVQFQKPKKIYNERRLFYGGGPGVAANDNFGSVGSSTGTSSDRRSSRGRGSYMPPGPPNGTHKPGVHPAGYPVPRVPMPPFHGGPQSQPYAIPSRGAVHGPVGAVPHVPSPGSRGFGAGRGNSSAPIGNHLPHQQGTQQPIGNLGSTFNFPALENPNSQPSVGGPLSQPGFANNMPVQGAGQSFRDQFSVPGMSQDFLGDDFKSQGSHVPYNVTDFSTQASQSGYAVDYATQXAQGGFPGNFLNQNSQAGYSRFGSGNDFMSQDYMAHGSQGLFTQVGFSDPLQDDATQSHFNVANANPLQSQMNSLYSQPFAHYNTQPLNMQASQQQPQGQSSQNQKIHYXG

Location information (JBrowse)

Scaffold	Start	End	Strand
Scaffold00047	455496	467534	-

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	Enzyme ID	pathway	mapID
K14326	UPF1, RENT1	EC:3.6.4.-	RNA transport	map03013
			mRNA surveillance pathway	map03015

Gene Ontology

biological_process
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay

cellular_component
GO:0005737 cytoplasm

molecular_function

GO:0003677 DNA binding

GO:0004386 helicase activity

GO:0005524 ATP binding

GO:0008270 zinc ion binding

Pfam domain

Protein	Pfam accession	Pfam name	Alignment start	Alignment end	E-value
Glyur000047s00004016.1	PF09416.5	UPF1_Zn_bind	130	227	3.80E-46
Glyur000047s00004016.1	PF13086.1	AAA_11	447	651	9.20E-54
Glyur000047s00004016.1	PF13087.1	AAA_12	659	855	2.00E-59

Expression pattern

SRP053019

SRA Experiment	Description	TPM
SRR1783599	control	32.624
SRR1783600	control	32.824
SRR1783602	moderate drought stress	36.566
SRR1811619	moderate drought stress	36.355

DRP000996

SRA Experiment	Description	TPM
DRR006519	Root Summer glycyrrhizin high producing strain	30.240
DRR006520	Root Summer glycyrrhizin high producing strain	29.801
DRR006521	Root Winter glycyrrhizin high producing strain	38.571
DRR006522	Root Winter glycyrrhizin high producing strain	37.501
DRR006523	Root Summer glycyrrhizin low producing strain	33.902
DRR006524	Root Summer glycyrrhizin low producing strain	33.659
DRR006525	Leaf Summer glycyrrhizin high producing strain	23.065
DRR006526	Leaf Summer glycyrrhizin high producing strain	22.930

SRP065514

SRA Experiment	Description	TPM
SRR2867873	Salt Stress (root)	68.361
SRR2868004	Drought Stress (root)	68.031
SRR2967015	Control (root)	75.955

SRP215420

SRA Experiment	Description	TPM
SRR9715738	Leaf	37.638
SRR9715740	Leaf	38.620
SRR9715741	Leaf	45.546
SRR9715739	Root	20.180
SRR9715742	Root	66.063
SRR9715743	Root	54.139

SRP188776

SRA Experiment	Description	TPM
SRR8749027	MeJA induced 9h	32.003
SRR8749028	MeJA induced 9h	48.430
SRR8749029	MeJA induced 9h	22.130
SRR8749030	Uninduced	23.144
SRR8749031	Uninduced	21.244
SRR8749032	Uninduced	15.969

SRP175571

SRA Experiment	Description	TPM
SRR8400026	NaCl treatment - Root	72.904
SRR8400027	Control - Root	63.053