Gene detail

Detail information of MD01G1091600 Annotation

Gene ID	Annotation
MD01G1091600	dicer-like 1

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	CFinderM0637	Group II intron splicing endoribonuclease Dicer [EC:3.1.26.-] tRNA(adenine34) deaminase [EC:3.5.4.33] DCL tRNA-specific adenosine deaminase activity ATP-dependent helicase activity nuclear dicing body Group I intron splicing tRNA wobble adenosine to inosine editing production of lsiRNA involved in RNA interference primary miRNA processing mRNA cleavage involved in gene silencing by miRNA regulation of seed maturation suspensor development

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD01G1091600	mRNA	Chr01	20654614	20661197	-

Sequences

CDS:

MD01G1091600

TCAAGAGTGAGAGAGCACGGGGGAAGCGTGAGGGTCCGGTCAAAGAAGAAGAAGAAGAGAGATAGAGAGCAGAATAGGCGTAGATAGACCGTGGGAATCTCAGAAAAGAAGAAAAAAAATCCCCACAAAAAAAAGGAAGAAAAGTTATGGTCTTTAATTAGGGTTTCTTCATAAAAGACCGCCATTGTTTCTTCAATCGTTCATTCATTCTGCGTATCCGAACGGTCTATCCACTCCTCTCTTACTCTCTCCCTCTAACAATCTTCGCCTTTCGATTTCGATTTCGATTTAATTGTTGTTGTTGTTGTTGTTTGATTGGATTCAGCTGAATTTTAGATTTTTATACAATATTTTAGTATCTAGGTTGTTATACATATTATTTATATAGATATAGTCTGAAATATATACTGGGGTTTAGCAATGGAGGAGGCTAGGGTTTCTGGGGACACTGGGAATGGTGCTCCCAGTGAGGAGGCGGTTCGGCCTTCGTACTGGCTGGATGCTTGTGAGGACATACCGTGTGATGTGATTGGTGATTTCGTGGAGTTCTGTGAACCTCCAGTTTGTGGTCCTCCTCTGGTGGCGGCGGTGGCCAATGGCAATGGCTGCAACCAGGAGGAGGATGGGTTGGTGGGCGATTTTTTCGGGGGGATTGATCACATTCTTGACAGTATCAAGAGCGGTGCTGGCCTCCCTGGTGCGACTGGTCCGAATTCAGATGTGAATGCCAACGGTGGTACTGGCATTGCTGTTGTTGAGGGTTGTGATAAGATTGAGCCGCCGGTGGTTGTGAATAGGGAGAATGCTGATGACTCGGTTGGACACAATGTTCGGAGTGGAGGGAGGAGTTTGGAGGCTGATAATGGAGAGAGTAAGGGTGATCGGAATGGTTATCAAAGGTTTGAAAAGAGGAGGGGTAATGGGGTTGTGAGGGAGAGAGATATGGATGGTGAAGAGAGGTTCTCCAAGAGGGTTGCTTTGGATAACGGAAGGAGGTATGGTTCAGGCAGAGGGCAATATAACATGAGGGACAAGAGTTTTGGTAGGAAGAGGCCTCGTGATTCCGAGGATATTGATCGGACGGATAGAGATAGAGATAGAGATCGGATTAGGAGAAGAGAGAATTATGGTACTTACAATAGGAGGGAGGGTGGTAGAGACAGGGAGGCAAAGGGTTATTGGGAGAGGGATAAGTTGGGAACGAATGAGCTTGTTTTTCGATTAGGGACTTATGAACCTGATCATAACAAAGAGGGTAGGATAGCTGATATGAAAAACCAGCAATTCAATGGGAAGGCTGAGAAGAAACCGGAGGAGGTTAAAGAAAAAATTCCTGAGGAACAAGCTAGGAAGTATCAATTGGATGTGCTTGAACAAGCAAAGAAGAGAAATACAATAGCTTTTCTTGAAACAGGTGCCGGAAAGACACTCATTGCCGTGCTTCTCATGCAAAGTGTTTGCAGTGATATGCAGCAAAAGCAGAACAAAAAGATGCTCGCTGTATTTCTCGTTCCTAAAGTTCCCCTTGTTTATCAGCAAGCTGAAGTTATTCGTGAGCGAACTGGTTTCCAAGTGGGCCATTATTGTGGTGAGATGGGCCAAGATTTCTGGGACACCCGAAGATGGCAGCATGAATTCGACACGAAACAGGTTCTGGTAATGACAGCTCAAATTCTGTTGAACATTCTGAGGCACAGCATTATAAAAATGGAAGCAATCAATCTCTTGATTCTGGATGAGTGTCATCACGCTGTGAAGAAACATCCGTATTCTTTAGTGATGTCTGAGTTCTATCATACAACCCCAAAGGAGAAGAGACCGTCTGTATTTGGGATGACTGCTTCTCCTGTTAATTTAAAAGGTGTTTCCAGCCAAATAGATTGTGCAATAAAGATTCGTAATCTTGAAAGTAAACTAGATTCCATTGTTTGTACCATAAAGGACCGTAAGGAGCTTGAAAAGCATGTTCCAATGCCTTCCGAAACAGTGGTGCAGTATGATAAAGGAGCTAGCTTATGGTCCCTTCATGAGCAGCTAAAAAAGATGGAAACGGAAGTTGAAGAAGCTGCAAAGTTCAGCTCTAGAAAAAGTAAATGGCAATTTATGGGAGCCAGAGATGCTGGGGCCAAGGAAGAGCTGCGCCAAGTGTATGGTGTTTCTGAAAGAACAGAAAGTGATGGGGCTGTTAACCTAATTCAAAAGTTGAGGGCTATTAATTATGCGCTCGGTGAACTGGGTCAATGGTGTGCTTACAAGGTTGCACAATCTTTCTTGACAGCCTTACAAAATGACGAGAGGGCAAACTACCAGCTTGATGTCAAGTTTCAGGAATCCTACCTGAGCAAAGTTGTAAATCTCTTACAATGTCAGCTATCAGAGGGAGCTGTTTCGGACAAGGAAACAAAAGTAGCAGATTCAGAAAATGGCGTTTCTTGTGATGGAAATGACCCTGATGAGATGGAGGAAGGAGAGCTACCTGATAGTCATGTTGTCTCTGGCGGGGAGCATGTAGATGTGATAATGGGAGCTGCTGTAGCTGATGGGAAGGTGACTCCAAAAGTGCAGTCACTGGTGAAAGTACTTCTCAAGTATCAGCATACAGAAGATTTTCGTGCAATCATCTTTGTGGAGCGAGTTGTGTCTGCTTTAGTTCTTCCCAAGGTCTTCGCAGAACTTCCTTCTTTAGGTTTTATAGAGTGTGCTAGCCTTATCGGCCACAACAATAGTCAGGAAATGAGAAGTTGCCAAATGCAGGACACTATTGCCAAATTCAAGGATGGCCGTGTGACACTGTTAGTTGCGACTAGTGTTGCTGAGGAAGGACTTGATATCCGGCAGTGCAATGTTGTTATTCGGTTTGACCTTGCAAAAACTGTTTTGGCTTACATTCAGTCCAGGGGTCGTGCTAGAAAACCTGGGTCTGATTACATCTTAATGGTGGAGAGAGGAAATCTGGCGCATGAAGCATTCTTAAGGAATGCCAGGAATAGCGAGGAGACTTTACGGAAGGAAGCAATAGAGAGAACTGACCTGAGTCATCTGAAGGATAGTGATAGGCTAATTTCAGTGGATACAACGCCAGGGACAGTGTACCAGGTGGAGTCAACCGGTGCTGTTGTGAGCTTAAACTCTGCTGTTGGACTCATCCATTTCTACTGCTCTCAGCTTCCCAGCGACAGGTACTCAATTCTTCGTCCTGAGTTTGTTATGGTGAGGCATGAGAAGCAAGGAGGTCACACTGAATATTCATGCAAACTTCAACTCCCTTGTAACGCACAATTTGAGACACTTGAGGGTCCCGCTGTTTGCTTGGCTGCTTGCAAGAAACTCCATGAGATGGGAGCATTTACCGACATGCTCTTGCCAGACAAGGGAAGCGGGGAAGAAAAAGAACAGGTTGACCAGAATGATGATGGAGATCCACTTCCTGGAACTGCTAGGCACAGAGAGTTCTATCCCGAAGGTGTAGCTAATATTCTCAAGGGAGAATGGATCTTATCTGGAAGAGATTTGGGCCGTGACTCGGAATTGATTCATGTTTACATGTATGGCGTGAAATGTGTAAACTCTGGCTCTTCAAAAGATCCTTTCTTGAATCAAGTTTCAGATTTCGCAGTTCTAGTAGGAAATGAACTGGATGCAGAGGTGTTATCGATGTCGATGGATCTATTTATCGCTCGAACCATGACTACAAAGGCATCCCTTGTCTTCAGGGGTTCAATATATATTACTGAAAGTCAGTTGGCGTCCCTTAAAAGTTTTCATGTAAGATTGATGAGTATTGTATTGGACGTGGATGTCAAACCTTCCACCACTCCTTGGGATCCTGCAAAGGCTTATTTATTTGTCCCTGTGGTTAGCGATAAGTGTGTGGATCCTATGAAAGAAATAGATTGGGATCTGGTTGAAAATATAAATGGTGCAGAGGCTTGGAATAATCCCCTTCAAAGAGCTCGACCTGATGTTTCCCTTGGCACAAGTGAGCGTACTCTAGGTGGAGACAGAAGGGAGTATGGTTTCGCGAAATTACGTCATGGCATGGCTTTTGGACAAAAATCCCATCCAACCTATGGTATCAGAGGAGCTGTGGCACAGTTTGATGTTGTTAAAGCTTCCGGATTGATGCCTGATCGGGATGCCCTAGATATTAGAAGGCCGGTAGATTTGCCCAAAGACAAGTTATTTATGGCTGATCCTACATGTGTCAGTGTCGAAGGCTTGGTCGGGAGGATTGTGACAGCTGCTCACTCAGGGAAGAGGTTTTATGTGGATTCAATATGCTATGATATGACGGCAGAAAACTCTTTCCCCCGGAAAGAAGGCTACCTTGGCCCTGTGGAGTACAGCTCATATGCTGATTATTACAAGCAAAAATTTATTCTCCTAAACCTAGAAACTAGTCAATTCTTAATGGACGGCTACAATGCCCCTGAGATTATGTGCTTGAAGAAGAGGAAAGCTATGGTGGTGCTTGGTTCCTGAGTAGCATTTTGTTTTTAGAAATGTTAGAAAGTGAATGGAAAC

Protein:

Gene family

Gene family	Subfamily
Epigenetic Regulators	DCL

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Arabidopsis thaliana	AT1G01040.1	1	ASU1;ATDCL1;CAF;DCL1;EMB60;EMB76;SIN1;SUS1\|ABNORMAL SUSPENSOR 1;DICER-LIKE 1;CARPEL FACTORY;EMBRYO DEFECTIVE 60;EMBRYO DEFECTIVE 76;SHORT INTEGUMENTS 1;SUSPENSOR 1
Arabidopsis thaliana	AT1G01040.2	0.998	ASU1;ATDCL1;CAF;DCL1;EMB60;EMB76;SIN1;SUS1\|ABNORMAL SUSPENSOR 1;DICER-LIKE 1;CARPEL FACTORY;EMBRYO DEFECTIVE 60;EMBRYO DEFECTIVE 76;SHORT INTEGUMENTS 1;SUSPENSOR 1
Prunus persica	Prupe.2G200900.1.p	1	dicer-like 1
Pyrus communis	PCP013442.1	1	-
Pyrus communis	PCP023484.1	0.769	-
Pyrus x bretschneideri	Pbr025895.1	1	-
Rosa multiflora	Rmu_sc0002119.1_g000026.1	1	-
Rubus occidentalis	Ro07_G20422	1	-
Fragaria vesca	mrna18596.1	1	dicer-like 1
Vitis vinifera	GSVIVT01027462001	1	dicer-like 1
Solanum lycopersicum	Solyc10g005130.2.1	1	dicer-like 1
Populus trichocarpa	Potri.002G181400.1	1	dicer-like 1
Nicotiana benthamiana	Niben101Scf03304g01025.1	1	Ribonuclease 3-like protein 3
Oryza sativa	LOC_Os03g02970.1	1	"Dicer, putative, expressed"

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
GO:0005515	protein binding	molecular_function

KEGG

KO	Description	Enzyme
K11592	endoribonuclease Dicer	EC:3.1.26.-

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF03368.10	Dicer_dimer	905	983	9.00E-13

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	3.41744
SRR5252888	dormant buds	no	dormant buds(0 month)	9.55202
SRR5252889	dormant buds	no	dormant buds(0 month)	9.20141
SRR5252886	dormant buds	no	dormant buds(1 months)	8.17627
SRR5252887	dormant buds	no	dormant buds(1 months)	7.69599
SRR5252884	dormant buds	no	dormant buds(2 months)	9.52237
SRR5252882	dormant buds	no	dormant buds(3 months)	9.88358
SRR5252883	dormant buds	no	dormant buds(3 months)	5.42526
SRR5252880	dormant buds	no	dormant buds(4 months)	10.1964
SRR5252881	dormant buds	no	dormant buds(4 months)	9.73883
SRR5252878	bud break	no	bud break	6.91778
SRR5252879	bud break	no	bud break	5.67169
SRR3744766	flower	no	mature	4.51433
SRR3744767	flower	no	mature	5.06539
SRR3744768	flower	no	mature	4.67638
SRR6308190	stigmas	no	open flowers	0.951774
SRR6308181	styles	no	open flowers	0.845794
SRR6308188	filaments	no	open flowers	1.53439
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	5.95552
SRR6308192	pollen	no	open flowers	8.76887
SRR6308191	petals	no	open flowers	1.61029
SRR6308194	sepals	no	open flowers	2.22897
SRR6308193	receptacles	no	open flowers	1.57474
SRR6308189	ovaries	no	open flowers	1.446
SRR3384922	fruit	no	1 week after full bloom	0.675678
SRR3384921	fruit	no	2 week after full bloom	0.581353
SRR3384920	fruit	no	3 week after full bloom	0.660504
SRR3384919	fruit	no	4 week after full bloom	0.686485
SRR3384923	fruit	no	5 week after full bloom	0.768902
SRR3384918	fruit	no	6 week after full bloom	1.11435
SRR3384917	fruit	no	8 week after full bloom	1.46893
SRR3384916	fruit	no	10 week after full bloom	1.10558
SRR3384915	fruit	no	12 week after full bloom	1.34395
SRR3384914	fruit	no	14 week after full bloom	1.21654
SRR3384913	fruit	no	16 week after full bloom	0.85973
SRR3384912	fruit	no	18 week after full bloom	0.960491
SRR3384911	fruit	no	19 week after full bloom	0.755403
SRR3384910	fruit	no	20 week after full bloom	1.68782
SRR768128	whole fruit	no	25 days post anthesis	3.09525
SRR768129	whole fruit	no	35 days post anthesis	0.895694
SRR768130	whole fruit	no	60 days post anthesis	3.27297
SRR768131	whole fruit	no	87 days post anthesis	4.40548
SRR7343308	immature fruit flesh	no	immature	5.11182
SRR7343309	immature fruit flesh	no	immature	3.56774
SRR6320494	ripe fruit flesh	no	mature	7.1909
SRR5405143	ripe fruit peel	no	mature	8.86784
SRR6320572	ripe fruit peel	no	mature	9.81908
SRR7403504	fruit	uninfected	mature	4.28008
SRR7403506	fruit	uninfected	mature	4.43982
SRR7403507	fruit	uninfected	mature	4.268
SRR7403500	fruit	infected with penicillium expansum	mature	1.94334
SRR7403501	fruit	infected with penicillium expansum	mature	1.40496
SRR7403508	fruit	infected with penicillium expansum	mature	1.89239
SRR7403502	fruit	infected with penicillium expansum	mature	1.54552
SRR7403503	fruit	infected with penicillium expansum	mature	1.72622
SRR7403505	fruit	infected with penicillium expansum	mature	1.6758
SRR1613973	Central seeds	no	20DAPF	1.7199
SRR1613974	Central seeds	no	20DAPF	2.07407
SRR1613975	Central seeds	no	20DAPF	1.53153
SRR1613976	Lateral seeds	no	20DAPF	1.41469
SRR1613977	Lateral seeds	no	20DAPF	1.26593
SRR1613978	Lateral seeds	no	20DAPF	1.81578
SRR3744786	stem	no	mature	4.09387
SRR3744787	stem	no	mature	4.50542
SRR3744772	stem	no	mature	4.76494
SRX765691	seedling shoot apex	no	4-6 week old seedling	3.54855
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	2.80608
SRR1089478	leaf	Virus-free	plantlets	1.74046
SRR1089477	leaf	ASGV-infected	plantlets	2.1549
SRR767660	leaf	uninfected	fully developed	1.93659
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	3.66945
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	3.23868
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	2.63276
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	0
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	3.19424
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	1.602
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	1.99223
SRR6308182	young leaf	no	immature leaves	2.26207
SRR3744769	leaf	no	mature	4.61268
SRR3744770	leaf	no	mature	5.15021
SRR3744771	leaf	no	mature	4.8466
SRR5405145	leaf	no	mature	6.00034
SRR6320561	leaf	no	mature	4.22825