Gene detail

Detail information of MD01G1196000 Annotation

Gene ID	Annotation
MD01G1196000	valyl-tRNA synthetase / valine--tRNA ligase (VALRS)

Network

Network Category	Global Network	Conditional network (different tissues and developmental stages)
Coexpression Positive	Top300 PCC genelist	Top300 PCC genelist
Coexpression Negative	Top300 PCC genelist	Top300 PCC genelist

Functional module

Method	Module ID	Function Annotation
Co-expression network	CFinderM0972	cytochrome-c oxidase activity response to endoplasmic reticulum stress NADH dehydrogenase (ubiquinone) Fe-S protein 8 [EC:1.6.5.3 1.6.99.3] ubiquitin-conjugating enzyme E2 N [EC:2.3.2.23] translation initiation factor 3 subunit K p24 family protein beta-1 vacuolar membrane ER to Golgi transport vesicle mitochondrial respiratory chain UBC13-MMS2 complex Golgi apparatus

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD01G1196000	mRNA	Chr01	29419691	29427060	+

Sequences

CDS:

MD01G1196000

ATGTGGAGCTTGAGCTGCAAGTGTCCGACGGTTAAAACTTTTGGCACCAAAGTCCAACAATATATGATTGGGCCCCACTTTAGGGTTTTAGGAAAGCAGACGCAAGTACTCTACCACTTCATCAGCAACCAGATCAAATTTGCAGCAGCGGCGCCGCCTCTCCTCCGCCGCTTCCACGTTCAGAGGCCTCTTCAGTCTTCCCCTCCGGCCGGTAGGGCGGCGATGGATAACGGAAAAGGGATTGAAGACCCAGAGAAGAAAAAGAAGAAGGAAGAAAAGGCAAGAGAGAAGGAATTGAAAAAGCAGAAAGCTTTAGAGAAAGCTGCCAAGCTTCAGGCACAACAAGCATCTAGTTCCTCTAAGAAGAGTGAAAAGAAGCATGTAAAGCGTTCCAACGAGGGGGAGGAGAATCCGGAGGACTTTATTGACCCAGAGACTCCATTTGGCGAGAAGAAACGGATGTCGAGTCAAATGGCAAAACAGTATAGTCCAAGTGCAGTAGAGAAATCGTGGTATGGATGGTGGGAGAAGACGGGATTCTTTGTGGCAGATGCTAAGAGCTCCAAACCTCCTTTTGTCATTGTTTTACCGCCCCCCAATGTGACTGGTGCCCTTCATATTGGCCATGCTCTTACTGCTGCTGTTGAGGACACTATAATCCGTTGGCGAAGAATGTCTGGTTACAATACCTTGTGGGTGCCTGGAATGGACCATGCTGGGATAGCGACACAGGTTGTTGTAGAAAAGAAGCTAATGCGCGAAAGACAGTTAACCAGGCATGATATTGGTCGTGAGAAATTTGTAGCTGAAGTTTGGAATTGGAAAAATAAGTATGGGGGCACCATTTTACAGCAGCTACGTCGTTTGGGTGCTTCTTTGGACTGGTCCCGTGAGTGCTTTACAATGGATGAGAAAAGATCAAGGGCCGTGACAGAGGCTTTTGTAAGGCTTCATAAGCAAGAGCTTATCTACAGGGATAATCGCCTAGTGAATTGGGATTGTGTCTTGCGGACAGCAATATCTGACATAGAGGTGGACTATATTGATGTAAAAGAAAGGACGTTGCTAAAGGTTCCTGGATATGAGAACCCTGTTGAATTTGGAGTGTTGACTTCATTTGCTTACCCTCTGGAAGAAGGTTTAGGTGAGATTGTTGTGGCCACTACTAGAGTGGAAACTATGCTTGGTGATACTGCTATTGCTGTACATCCTGATGATGAAAGGTACCGGCATCTTCATGGAAAGCATGCCATTCATCCTTTTAATGGAAGAAGGATTCGCATAATATGTGATGCAATTCTCGTTGATCCAGAATTTGGGACTGGTGCTGTGAAGATTACACCGGCCCATGATCCTAATGACTTTGATGTTGGAAAGCGCCATAATCTTGGATTTATCAACGTCTTTACTGATGATGGAAAAATAAATCAGGATGGTGGAGAATTTGTAGGGATGCCACGTTTCAAAGCCCGAGAGGCAGTGACTCAAGCATTAAAGAAGAAGGGCCTCTTTAGAGATGCTAAGGCCAATGAGATGCGCCTTGGAATTTGCTCTAGAAGTCAAGATGTTGTGGAGCCCATGATAAAGCCCCAATGGTATGTTAAATGCAGTGGTATGGGAAAAGAAGCCCTTCATGCTGCCATAGATGATGAGAACAGGAAGCTTGAGATCATCCCGAAACAGTATACTGCAGATTGGAAGAGATGGCTTGAGAACATTCGTGATTGGTGCATTTCAAGGCAACTCTGGTGGGGTCACCGTGTTCCTGCATGGTATGTTGTTTATGAGGGTGATAGTCCAGACAATTTTGGAGTATCAGATGAGCGATGGGTTGTTGCGAGAAATGAAGAAGAGGCCAAAGGACATGCCAGTCAAAAATTTGAGGGGAAATTTCAATTGATGCAGGATCCTGATGTGCTTGACACTTGGTTTTCCGCTGGTCTCTTCCCATTGTCTGTGTTAGGCTGGCCTGATGATACAGAAGATCTGAAGGCGTTTTATCCTACTTCAGTTCTTGAAACCGGTCATGACATTCTCTTTTTCTGGGTTGCTCGTATGGTAATGCTTGGAAGTACATTGGGTGGCAACGTACCTTTTACAAAGGTCTATTTGCACCCAATGATTCGCGATGCACATGGGCGTAAAATGTCTAAGTCCTTGGGGAATGTCATTGATCCTCTTGAAGTAATAAATGGTATTACCCTTGAAGGTCTGCATCAGAGGCTTTTGGAGGGAAATTTGGATCCCAAGGAATTGACTGTAGCCAAAGAAGGGCAAGTAAAGGACTTTCCTAAGGGTATTGAAGAATGCGGTGCTGATGCTCTTCGTTTTGCTCTTGTCTCTTACACTGCTCAGTCAGATAAGATAAATCTGGACATCCAAAGGGTTGTGGGTTATCGTCAATGGTGCAATAAACTGTGGAATGCAGTACGATTTGCTATGAGCAGGCTTGGGGATGATTTTGTGCCACCCTCATATGTAAATCCAGATGTGCTTCCATTTAGTTGCCAGTGGATACTCTCGGTACTAAATAAAGTCATATCCAAAGCTGTTTTGTCATTGGAAGCGTATGACTTCTCAGATGCAGCCACTGCAGTGTATGCTTGGTGGCAGTACCAATTGTGTGATGTCTTTATTGAAGCTATCAAGCCTTACTTTTCTGGCAACGATCCAAAGTATGAGTCTGAAAGGGGTTTTGCACAAGCCACACTATGGTTATGTCTTGACAATGGTCTGCGGTTGCTTCATCCGTTTATGCCATTCGTCACAGAAGAACTGTGGCAGCGCCTTCCGTCACCAAAGGATCACAAGAGGCCAGCCTCAATTATGATATGCGAATATCCTTCCACTCTAGAGCGCTGGACAAATGAAAGGGCAGAGATCGAGATGAATCTTATAGATTCTGTTGTGAAATCTCTCCGTTCACTTTCAAAAGAAAGTCGTGAAAGGCGACCAGCTTCTGTGCTTTGTCGAACACCATTAGATAGGGAAATAATATGCAGCCATCAACTGGAGATTGAAACTCTCGCCAATTTGTCATCTTTGACGGTAATCAACGAGAACGATGCTGCTCCAACTGGATGTGTGGTGGGTGTTGTAAACGAAAACCTTTCTGTGTATCTCAAGCTTCAAGGAAGCCGTTCATTAGAAGCCGACCTTGAAAAGATCAGGAAGAAGATGGAAGACATTACATTGCAACAAGAGAAGCTATCGAAGGCGATGAATGTAGCCGGCTACAAAGAAAAGGTCCCGGAGAAGATTCAGAAAGCCAACGCAGACAGGCTTGAATCACTCGAGAAGGAAAAAATGTCTCTCGAAGAAGCAAGCCAGCATATGGAAGCACAGATATCGAGCAACGAAAAGTAGTGACTTCCAATTTGAAATTCGATCAAGAAGTATTTATTCGCATTACATTACTCGCGTATTCTTAGATAATTTATTGAGATTTTGTCGCTGTTACTGAATAATTAGTTCACAAATAATTTTTCTCGATTATATTATAAATTTATACACGGTACATCTGCGTGGTACATATATTTGACTTTTA

Protein:

Gene family

Gene family	Subfamily
--	--

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Arabidopsis thaliana	AT1G14610.1	1	TWN2;VALRS\|TWIN 2;VALYL TRNA SYNTHETASE
Prunus persica	Prupe.2G289400.1.p	1	valyl-tRNA synthetase / valine--tRNA ligase (VALRS)
Prunus persica	Prupe.2G289400.2.p	0.964	valyl-tRNA synthetase / valine--tRNA ligase (VALRS)
Pyrus x bretschneideri	Pbr013923.1	1	-
Rosa multiflora	Rmu_sc0004136.1_g000003.1	1	-
Rubus occidentalis	Ro07_G09491	1	-
Fragaria vesca	mrna13331.1	1	valyl-tRNA synthetase / valine--tRNA ligase (VALRS)
Vitis vinifera	GSVIVT01010632001	1	valyl-tRNA synthetase / valine--tRNA ligase (VALRS)
Populus trichocarpa	Potri.007G004100.1	1	valyl-tRNA synthetase / valine--tRNA ligase (VALRS)
Nicotiana benthamiana	Niben101Scf06397g04016.1	1	Valine--tRNA ligase
Nicotiana benthamiana	Niben101Scf05486g00009.1	0.692	Valine--tRNA ligase
Oryza sativa	LOC_Os03g48850.1	1	"valyl-tRNA synthetase, putative, expressed"
Oryza sativa	LOC_Os10g36210.1	1	"valyl-tRNA synthetase, putative"
Zea mays	GRMZM2G117870_P01	1	-

Gene Ontology

GO term	Description	Category
GO:0002161	aminoacyl-tRNA editing activity	molecular_function
GO:0006438	valyl-tRNA aminoacylation	biological_process
GO:0004832	valine-tRNA ligase activity	molecular_function
GO:0005524	ATP binding	molecular_function

KEGG

KO	Description	Enzyme
K01873	valyl-tRNA synthetase	EC:6.1.1.9

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF08264.9	Anticodon_1	837	979	3.10E-36

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	3.89356
SRR5252888	dormant buds	no	dormant buds(0 month)	8.2348
SRR5252889	dormant buds	no	dormant buds(0 month)	9.66779
SRR5252886	dormant buds	no	dormant buds(1 months)	6.18642
SRR5252887	dormant buds	no	dormant buds(1 months)	5.85768
SRR5252884	dormant buds	no	dormant buds(2 months)	8.40015
SRR5252882	dormant buds	no	dormant buds(3 months)	6.8931
SRR5252883	dormant buds	no	dormant buds(3 months)	9.10212
SRR5252880	dormant buds	no	dormant buds(4 months)	9.07694
SRR5252881	dormant buds	no	dormant buds(4 months)	9.2266
SRR5252878	bud break	no	bud break	5.99554
SRR5252879	bud break	no	bud break	4.48504
SRR3744766	flower	no	mature	4.91894
SRR3744767	flower	no	mature	5.28739
SRR3744768	flower	no	mature	5.10117
SRR6308190	stigmas	no	open flowers	2.80289
SRR6308181	styles	no	open flowers	2.67921
SRR6308188	filaments	no	open flowers	4.16052
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	2.71572
SRR6308192	pollen	no	open flowers	0
SRR6308191	petals	no	open flowers	4.24176
SRR6308194	sepals	no	open flowers	4.76779
SRR6308193	receptacles	no	open flowers	3.96684
SRR6308189	ovaries	no	open flowers	2.95928
SRR3384922	fruit	no	1 week after full bloom	2.33005
SRR3384921	fruit	no	2 week after full bloom	1.21257
SRR3384920	fruit	no	3 week after full bloom	1.62288
SRR3384919	fruit	no	4 week after full bloom	2.09113
SRR3384923	fruit	no	5 week after full bloom	2.11998
SRR3384918	fruit	no	6 week after full bloom	2.08847
SRR3384917	fruit	no	8 week after full bloom	2.35187
SRR3384916	fruit	no	10 week after full bloom	2.0956
SRR3384915	fruit	no	12 week after full bloom	2.01604
SRR3384914	fruit	no	14 week after full bloom	1.70805
SRR3384913	fruit	no	16 week after full bloom	2.09121
SRR3384912	fruit	no	18 week after full bloom	2.26059
SRR3384911	fruit	no	19 week after full bloom	2.26348
SRR3384910	fruit	no	20 week after full bloom	1.75359
SRR768128	whole fruit	no	25 days post anthesis	2.89263
SRR768129	whole fruit	no	35 days post anthesis	1.21718
SRR768130	whole fruit	no	60 days post anthesis	0.895922
SRR768131	whole fruit	no	87 days post anthesis	2.73494
SRR7343308	immature fruit flesh	no	immature	3.8347
SRR7343309	immature fruit flesh	no	immature	3.56015
SRR6320494	ripe fruit flesh	no	mature	3.94549
SRR5405143	ripe fruit peel	no	mature	5.3702
SRR6320572	ripe fruit peel	no	mature	4.66844
SRR7403504	fruit	uninfected	mature	2.87877
SRR7403506	fruit	uninfected	mature	3.22531
SRR7403507	fruit	uninfected	mature	3.3137
SRR7403500	fruit	infected with penicillium expansum	mature	1.48163
SRR7403501	fruit	infected with penicillium expansum	mature	1.57733
SRR7403508	fruit	infected with penicillium expansum	mature	0.999254
SRR7403502	fruit	infected with penicillium expansum	mature	1.3853
SRR7403503	fruit	infected with penicillium expansum	mature	1.13069
SRR7403505	fruit	infected with penicillium expansum	mature	1.60478
SRR1613973	Central seeds	no	20DAPF	1.44365
SRR1613974	Central seeds	no	20DAPF	1.55923
SRR1613975	Central seeds	no	20DAPF	1.29018
SRR1613976	Lateral seeds	no	20DAPF	1.31428
SRR1613977	Lateral seeds	no	20DAPF	1.23457
SRR1613978	Lateral seeds	no	20DAPF	1.50383
SRR3744786	stem	no	mature	7.0253
SRR3744787	stem	no	mature	7.71087
SRR3744772	stem	no	mature	7.69088
SRX765691	seedling shoot apex	no	4-6 week old seedling	7.71459
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	3.19198
SRR1089478	leaf	Virus-free	plantlets	6.35801
SRR1089477	leaf	ASGV-infected	plantlets	7.95133
SRR767660	leaf	uninfected	fully developed	2.63398
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	3.3426
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	1.85112
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	2.26794
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	4.41479
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	1.03129
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	4.40347
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	3.74946
SRR6308182	young leaf	no	immature leaves	3.71834
SRR3744769	leaf	no	mature	6.35018
SRR3744770	leaf	no	mature	6.74157
SRR3744771	leaf	no	mature	6.68168
SRR5405145	leaf	no	mature	4.68506
SRR6320561	leaf	no	mature	4.94867