SustainPineDB

All assemblies
Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene6890

Length: 1026 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene6890

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Endoribonuclease Dicer homolog 1 n=4 Tax=Poaceae RepID=DCL1_ORYSJ	-	-	0.0	44%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	82%
Sma3	Dicer-like protein	-	-	7.19e-13	-

Source	ECs	Term	Type	e value	Identity
Sma3	Ribonuclease III.	EC:3.1.26.3	-	7.95e-10	-

Source	Gene names
Sma3	AT4g15420; At1g01040; At3g20420; At3g20450; At3g43920; At4g15417; CAF; DCL1504; DCL1a; DCL1b; DCL901; DCL902; DCL903; DCL904; GSVIVT00025032001; GSVIVT00025923001; GSVIVT00026189001; GSVIVT00027279001; LOC_Os03g02970; MQC12.19; MtrDRAFT_AC150443g32v2; OJ1

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	nucleolus	GO:0005730	Cellular Component	-
Sma3	cytoplasm	GO:0005737	Cellular Component	-
Sma3	nuclear dicing body	GO:0010445	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	double-stranded RNA binding	GO:0003725	Molecular Function	-
Sma3	helicase activity	GO:0004386	Molecular Function	-
Sma3	ribonuclease III activity	GO:0004525	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	peptidase activity	GO:0008233	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	cytokinesis	GO:0000910	Biological Process	-
Sma3	RNA processing	GO:0006396	Biological Process	-
Sma3	ubiquitin-dependent protein catabolic process	GO:0006511	Biological Process	-
Sma3	virus induced gene silencing	GO:0009616	Biological Process	-
Sma3	embryonic pattern specification	GO:0009880	Biological Process	-
Sma3	flower development	GO:0009908	Biological Process	-
Sma3	maintenance of DNA methylation	GO:0010216	Biological Process	-
Sma3	vegetative to reproductive phase transition of meristem	GO:0010228	Biological Process	-
Sma3	production of ta-siRNAs involved in RNA interference	GO:0010267	Biological Process	-
Sma3	production of lsiRNA involved in RNA interference	GO:0010599	Biological Process	-
Sma3	primary miRNA processing	GO:0031053	Biological Process	-
Sma3	mRNA cleavage involved in gene silencing by miRNA	GO:0035279	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Ribonuclease III domain	IPR000999	-	-
Sma3	Double-stranded RNA-binding	IPR001159	-	-
Sma3	Legume lectin domain	IPR001220	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Argonaute/Dicer protein, PAZ	IPR003100	-	-
Sma3	Ubiquitin fusion degradation protein UFD1	IPR004854	-	-
Sma3	Dicer double-stranded RNA-binding fold	IPR005034	-	-
Sma3	Helicase/UvrB domain	IPR006935	-	-
Sma3	Zinc finger, C2H2	IPR007087	-	-
Sma3	Peptidase, C-terminal, archaeal/bacterial	IPR007280	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3	Double-stranded RNA-binding-like	IPR014720	-	-
Sma3	Zinc finger, C2H2-like	IPR015880	-	-
Sma3	Aldo/keto reductase, conserved site	IPR018170	-	-
Sma3	Extracellular solute-binding protein, family 3, conserved site	IPR018313	-	-

Source	Species	ID	Description	e value	Identity
RefSeq	Populus trichocarpa	XP_002302679.1	dicer-like protein [Populus trichocarpa]	0.0	45%

Full-Lengther Next Prediction

SNPs (tot: 39)

Position	A %	C %	G %	T %	Probability
550		50		50	1.0
586		50		50	1.0
596	83		16		0.994512
597	83		16		0.994512
598	83		16		0.994512
610		87		12	0.992554
613	12			87	0.992554
623	87		12		0.992554
637			12	87	0.992554
655			11	88	0.923564
656	11			88	0.923564
657	11	88			0.923564
658		88	11		0.923564
662			87	12	0.992554
663	87		12		0.992554
664			12	87	0.992554
665		87	12		0.992554
683	85	14			0.993533
685	14		85		0.993533
688	14		85		0.993533
700	14	85			0.993533
708			66	33	1.0
737	83		16		0.994512
740	16		83		0.994512
747	83		16		0.994512
770	83		16		0.994512
781	16			83	0.994512
788	83		16		0.994512
790	16	83			0.994512
792		87	12		0.992554
794		12		87	0.992554
795	12		87		0.992554
796		11	88		0.923564
797	11		77	11	0.968132
798		11		88	0.923564
801	11		88		0.923564
816		87		12	0.992554
841		12	87		0.992554
875			75	25	0.996473

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Biología Molecular y Biotecnología de Plantas, Facultad de Ciencias y Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071 Málaga, Spain