Gene detail

Detail information of MD11G1082500 Annotation

Gene ID	Annotation
MD11G1082500	RNA helicase

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	CFinderM0703	nuclear pore complex protein Nup160 response to potassium ion mitotic nuclear division histone H3-K14 acetylation histone H3-K23 acetylation histone H3-K18 acetylation

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD11G1082500	mRNA	Chr11	7014042	7025897	+

Sequences

CDS:

MD11G1082500

GTGTTTTTTGGTATCAACGAGGAGCACAAGCCAGAGTCTAAATGCAATGGAAAATACAGTTTTACAATTCTCTCTCTCTACATTTTCCTCTCTCTCTCTCTCTCTAAAACTCTGATTTCTTACTCACTAAGATACTATTTTGATACCAAAGTGAAGAAGTGACAACGACGACACTTCTTTGAGTTCGTTTCTTTCGACAGCCCATCAAACAAAACCCGCCAAAAACCAAACCCTTCGGAATCGGAATAAAAAAAATCAAGAGTGTTCGAAAGGATTTTTTTTTAACCCCCGAAACACTCCAACCCTGGAGCCCAAAAAATGGATCCGATAGAAGCAGCGAACGGGCTCTCGTTCCGGGTCGGATTCTCCGGCCACAGTGGCCACCTCCGGCTTGAGCCCCTCTCCACGGTTGAAAGCTCCGACCCCGTCAAGTCTCTCCCTGATTTCATTCTGCCGCCTGCTTTTCCTAGGGAGACGCCTGGATCAATAAAAGAGTATATAGAGGAGAAGTATCTATCGCTGAGATTGGATGACGAAGTATTTGCACCCGAAAAGGTTGGGAGGCAGTGGGATTTCGACTGGTTTGATAAGGCAGATGTTCCCTTGGAGCTATCACTGCCGCGCTGCGTTGTGGTTCCCACGTGGGAATTGCCATTTCGGCGCCAGAAGAATGGGTCGGCTGAAGGTCAATGGGAACCTAAATCTGTGCAGGTGGATGTGTCAGAACTTATAGTAGGAGCTCGAGAGTCTGGTTCATTGCCACGTTTGGCTGGACCAGCTAAGGATTTTGTACGGGGAAGCATCAACAACCGCCCTTTTCGTCCAGGAGGCTTGGATGATTCCCAATCTCTAGAAAGAGTTGTTCCTGATGGTGCTTGTAATGGCGAATGGGTACGCGAACTTCTGGTTGGTGGCTCTCCTCAGGCTGTACCTCCAAGCTTTAAGCAAGGATTGGACCTTGGTGATCTGAAGGCCTATCCATGCTCATGGAATGTATATAAGGATCAAAGTTCCATGGAAAGCACGTCAGATGAAAAACTGAGTGGGTTGTCTGTGCAGTTTGATGACCTGTTCGAGAAGGCTTGGGAAGAGGAAGTTGTTGAATTTGAAGGAGATGGTCAATTGTCAGGATCAGAATCTGTTAAGTCAGAGGATGAAGTAAAGGAGGTTGATGTTGCCATCGATTCTTGTGAGCCTGAATTGTCTTTGTTGGATGAGCTTTTGTCAGTTGAGGCAGGAGAAACAAAGTCAAGATCTAATGGAACTGGTGAAGAGGATGAACAAAATCCGAAGGTGGCTTGGGCTATTAGTGGAGGTACTGAATATATTGCAGAGAACTTTCATGATCTTGTTCCCAACAAAGCAATGGATTTTCCTTTTGAATTGGACAAATTCCAGAAGGAGGCTATTTATTATCTTGAAAAGGGGGACTCGGTATTTGTGGCTGCTCACACATCAGCTGGAAAGACAGTTGTTGCAGAATATGCATTTGCTTTAGCATCAAAACATTGCACCAGAGCTGTGTATACAGCTCCTATCAAAACCATCAGCAACCAAAAATATAGAGATTTGTGTGGAAAATTTGATGTTGGACTTCTCACTGGTGATGTTAGCTTGAGGCCAGAGGCTTCTTGTCTCATTATGACGACTGAAATATTGAGGTCAATGCTTTATCGCGGTGCTGACATAATACGTGATATTGAATGGGTTATCTTTGACGAAGTGCACTATGTCAATGATGTCGAAAGAGGTGTTGTTTGGGAAGAAGTTATTATAATGCTTCCAAGACACATCAATATTGTCCTCCTTTCAGCTACGGTACCAAACAAAGTTGAGTTTGCTGACTGGATTGGACGGACAAAGCAAAAGCAAATCCGTGTTACCGGGACTACAAAAAGACCAGTCCCATTGGAGCACTGTCTATTTTACTCCGGAGAACTATACAAAATATGTGAAAGTGAAAGCTTTATTCCCGAGGGGTTCAAAGCTGCAAAAGATGCATTTAAGAAAAAGAATATGAATTCTGCCACTGGTGGTAGTGGATCACAGGCACCAGCTTCAGCTTCTCACGATGGGGCTCGATCTCAAAAACAAAGTTCAAACTGGGGCGGAAAAGAGAAGAAGCAATCTGGTCCCCAAAATTCAGGGAATTTCTCCCGAACGAGAGGAGAAAGTCAAAACAATGGAAATGGCATGAACAGTTGGGGTTTAAGAAGATCAGATGCTTCTTTGTGGTTGTCACTTATTAACAAGCTCTCAAAGATGTCGCTATTACCTGTGGTGGTATTTTGTTTCTCAAAGAATCGCTGTGATAAGTCAGCTGATAGTATGTATGGGACTAACCTTACAAGTAGTTCTGAGAAAAGTGAGATTCGTGTTTTCTGTGACAAAGCATTTTCGCGGCTAAAGGGATCTGATAGGACTTTACCACAGGTTGTCAGAGTTCAAAGCCTTCTTCATAGAGGGATTGGTGTCCATCATGCTGGACTGCTTCCAATTGTTAAGGAAGTTGTGGAAATGCTTTTTTGTCGTGGTGTGATCAAGGTTTTGTTCTCAACAGAGACATTTGCAATGGGGGTTAATGCACCAGCTAGAACGGTTGTTTTTGATATATTAAGGAAATTTGATGGCAAGGAATTTAGACAATTACTTCCAGGAGAATACACTCAAATGGCAGGCCGTGCGGGCAGAAGAGGACTTGATAAAATTGGCACAGTTATTGTAATGTGCCGTGATGAAATCCTAGGAGAGAGTGATTTGAAGCATGTCATAGTTGGAAGTGCAACCCGGCTTGAATCTCAGTTTCGACTTACCTATATTATGATCCTGCATCTCCTTCGTGTTGAGGAACTGAAGGTGGAGGACATGCTGAAAAGAAGTTTTGCTGAGTTCCATGCTCAGAAGAAACTACCAGAACAGCAGCAACTTCTGATGCGAAAGCTTGCTCAGGCTACAAAACCTATCGAATGTATAAAAGGTGAACCAGCTATTGAGGAGTATTATGACATCCGCTCGGAAGCTGAGAATCATAACACGGAAATATTGGAGGCAGTTATGCAGTCTCCTGTTGCCCAACAATTTCTTACAACTGGGAGAGTGGTAGTCATGAAATCAGAGTCAGCGCAGGACCACTTGCTTGGAGTCGTCGTGAAAGCACCTAGTGCTACTAATAAACAATATATTGTTTTGGTGCTGAAACCTGAACTACCGCCGCAGACTCCACTGGGTAGTGGTAACTTGCAAGACAGTAAAAGCACGGATTATCCACAAGGTTTTTTTGTGGCACCAAAATCTAAACGTGGTCTTGATGAAGAGTATTGTTCTGGTGTCAAATCTCGGAAAGGAAAGGGTGTCATCAACATAAAATTACCACACCAGGGTTCTGCTGCTGGGGTGAGCTTTGAGGTTAAAGGAGTTGACAGCAAAGATTTTCTATGCATATGCAATTGCAAGATAAAAATTGACCAAGTTGGGCTTCTTGAAGAGAATAGCAGTGCTGCTTACTCCAAGACAGTTCAACAGCTGTTGGACACAAAATCCGACGAAAATAAGTACCCTCCAGCCCTGGATCCACATAAAGATCTGAAGTTGAGAGATGTGAATCTCGTGGCAACATACTACAAGTGGACTAACTTATTGCAAAAGATGGCAAAGAATAAGTGCCATGGATGTATAAAGTTGGACGAGCACATTAAGTTAGCAAGAGAGATGAAGAGACACAGTGAGGAAGTCGATGCTCTTAAGTTTCAAATGTCAGATGAAGCACTTAAACAAATGCCAGACTTTCAAGGCCGGATAGATGTTCTGCAGGAAATTGGATGTATCAATGCTGATCTTGTGGTTCAAATAAAAGGCCGTGTTGCTTGCGAAATGAACTCTGGGGAGGAGTTGATAGCCACAGAGTGTTTGTTTGAAAACCAACTGGATGACCTGGAACCAGAAGAAGCGGTGGCGTTGATGTCTGCCTTTGTGTTTCAGCAGAAGAATACTTCTGAACCTTCTCTTACTCCAAAACTGTCTCAGGCCAAACAGAGGTTGTACGATATAGCAATAAGACTTGGCCAGCTTCAATCCCACTTCAAACTTCAAATAAATCCAGAGGAGTACGCTCGAGAGAATCTCAAGTTTGGTCTTGTTGAAGTCGTTTATGAGTGGGCGAAGGGCACTCCGTTTGCAGACATTTGTGAACTTACAGATGTTGCTGAAGGAATGATAGTGCGAACCATTGTCAGACTTGATGAGACGTGTCGCGAGTTCAAAAATGCTGCATCTATTATGGGTAATTCTGCTCTGTACAAGAAAATGGTAACAGCTTCAAATGCAATCAAGCGCGACATTGTATTTGCAGCTAGCTTATACGTCACCGGAGTTTAACTGCTTCTCAACTTGAAGGTACACCTCTCCACTTCATCCCTGTTTAAGTACTAAAGAGGAGGATCTGGAGAAGCAGACATAACCGTTCGTTGTAATTGTAAATTATTTCCCATCCTGTTCCACATGCTCAATTTCCGCAAAATTATCAATGTCCGGTCATCGAATTTGTTTTATACCTTAACTGATTCGTTCTGATAACAGTTCCAGATGTTGTAGAACTACAGCAGGACATCAATGTGCAATTTTAGTTCAGATAGGGAGTTAACAAGTGAGATTTTATTTGTTTTGCTTGTGCTAAATGTTTCTGTGCCGTTTGG

Protein:

Gene family

Gene family	Subfamily
--	--

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Arabidopsis thaliana	AT3G46960.1	1	"RNA helicase, ATP-dependent, SK12/DOB1 protein"
Pyrus communis	PCP014017.1	1	-
Pyrus x bretschneideri	Pbr028005.1	1	-
Rosa multiflora	Rmu_sc0000435.1_g000017.1	1	-
Rubus occidentalis	Ro03_G06211	1	-
Fragaria vesca	mrna07965.1	1	"RNA helicase, ATP-dependent, SK12/DOB1 protein"
Vitis vinifera	GSVIVT01024809001	1	"RNA helicase, ATP-dependent, SK12/DOB1 protein"
Solanum lycopersicum	Solyc06g005990.2.1	1	"RNA helicase, ATP-dependent, SK12/DOB1 protein"
Populus trichocarpa	Potri.009G041200.1	1	"RNA helicase, ATP-dependent, SK12/DOB1 protein"
Nicotiana benthamiana	Niben101Scf07880g03022.1	1	helicases;ATP-dependent helicases;nucleic acid binding;ATP binding;DNA-directed DNA polymerases;DNA binding LENGTH=2154
Oryza sativa	LOC_Os02g06500.1	1	"DSHCT domain containing protein, expressed"
Zea mays	GRMZM2G024882_P01	1	"RNA helicase, ATP-dependent, SK12/DOB1 protein "

Gene Ontology

GO term	Description	Category
GO:0008026	ATP-dependent helicase activity	molecular_function
GO:0003676	nucleic acid binding	molecular_function
GO:0005524	ATP binding	molecular_function

KEGG

KO	Description	Enzyme
K12599	antiviral helicase SKI2	EC:3.6.4.-

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF00270.25	DEAD	359	506	1.60E-14
PF13234.2	rRNA_proc-arch	848	1147	2.80E-40
PF08148.8	DSHCT	1174	1343	3.40E-51

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	2.547
SRR5252888	dormant buds	no	dormant buds(0 month)	9.39345
SRR5252889	dormant buds	no	dormant buds(0 month)	10.0991
SRR5252886	dormant buds	no	dormant buds(1 months)	7.74566
SRR5252887	dormant buds	no	dormant buds(1 months)	7.4089
SRR5252884	dormant buds	no	dormant buds(2 months)	7.67482
SRR5252882	dormant buds	no	dormant buds(3 months)	9.44361
SRR5252883	dormant buds	no	dormant buds(3 months)	7.55278
SRR5252880	dormant buds	no	dormant buds(4 months)	11.3453
SRR5252881	dormant buds	no	dormant buds(4 months)	11.8625
SRR5252878	bud break	no	bud break	11.6899
SRR5252879	bud break	no	bud break	9.99712
SRR3744766	flower	no	mature	3.03623
SRR3744767	flower	no	mature	3.35473
SRR3744768	flower	no	mature	3.18135
SRR6308190	stigmas	no	open flowers	2.80669
SRR6308181	styles	no	open flowers	2.41868
SRR6308188	filaments	no	open flowers	1.62518
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	3.63205
SRR6308192	pollen	no	open flowers	1.94843
SRR6308191	petals	no	open flowers	2.84802
SRR6308194	sepals	no	open flowers	1.96235
SRR6308193	receptacles	no	open flowers	2.73923
SRR6308189	ovaries	no	open flowers	2.52623
SRR3384922	fruit	no	1 week after full bloom	1.50109
SRR3384921	fruit	no	2 week after full bloom	1.66094
SRR3384920	fruit	no	3 week after full bloom	1.23993
SRR3384919	fruit	no	4 week after full bloom	1.80639
SRR3384923	fruit	no	5 week after full bloom	1.28491
SRR3384918	fruit	no	6 week after full bloom	1.58584
SRR3384917	fruit	no	8 week after full bloom	1.66104
SRR3384916	fruit	no	10 week after full bloom	1.70585
SRR3384915	fruit	no	12 week after full bloom	1.29381
SRR3384914	fruit	no	14 week after full bloom	0.886734
SRR3384913	fruit	no	16 week after full bloom	1.35972
SRR3384912	fruit	no	18 week after full bloom	1.16507
SRR3384911	fruit	no	19 week after full bloom	0.815908
SRR3384910	fruit	no	20 week after full bloom	1.43043
SRR768128	whole fruit	no	25 days post anthesis	1.9128
SRR768129	whole fruit	no	35 days post anthesis	2.07842
SRR768130	whole fruit	no	60 days post anthesis	0.926775
SRR768131	whole fruit	no	87 days post anthesis	2.39971
SRR7343308	immature fruit flesh	no	immature	2.65735
SRR7343309	immature fruit flesh	no	immature	3.53265
SRR6320494	ripe fruit flesh	no	mature	2.56071
SRR5405143	ripe fruit peel	no	mature	1.9699
SRR6320572	ripe fruit peel	no	mature	1.99058
SRR7403504	fruit	uninfected	mature	2.23661
SRR7403506	fruit	uninfected	mature	1.89208
SRR7403507	fruit	uninfected	mature	1.94389
SRR7403500	fruit	infected with penicillium expansum	mature	0.167902
SRR7403501	fruit	infected with penicillium expansum	mature	0.213569
SRR7403508	fruit	infected with penicillium expansum	mature	0.17962
SRR7403502	fruit	infected with penicillium expansum	mature	0.277745
SRR7403503	fruit	infected with penicillium expansum	mature	0.265902
SRR7403505	fruit	infected with penicillium expansum	mature	0.139425
SRR1613973	Central seeds	no	20DAPF	1.45578
SRR1613974	Central seeds	no	20DAPF	1.88002
SRR1613975	Central seeds	no	20DAPF	1.75916
SRR1613976	Lateral seeds	no	20DAPF	1.71543
SRR1613977	Lateral seeds	no	20DAPF	1.54915
SRR1613978	Lateral seeds	no	20DAPF	1.7264
SRR3744786	stem	no	mature	4.07628
SRR3744787	stem	no	mature	4.35114
SRR3744772	stem	no	mature	4.62325
SRX765691	seedling shoot apex	no	4-6 week old seedling	7.50685
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	4.38282
SRR1089478	leaf	Virus-free	plantlets	2.93245
SRR1089477	leaf	ASGV-infected	plantlets	2.84958
SRR767660	leaf	uninfected	fully developed	1.07947
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	1.5589
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	2.66624
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	0.844932
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	0.411507
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	0.811618
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	1.14448
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	1.37603
SRR6308182	young leaf	no	immature leaves	6.43191
SRR3744769	leaf	no	mature	3.31619
SRR3744770	leaf	no	mature	3.96688
SRR3744771	leaf	no	mature	3.42043
SRR5405145	leaf	no	mature	2.2878
SRR6320561	leaf	no	mature	2.07801