SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene106189

Length: 337 nt

UniGene Fasta

>sp_v3.0_unigene106189
CGTCGTGACCTTGGCTGTCACTCAATGTTGAGAAGTCTCAAGGTAAAGCGTATGATGTGAGGCCTAATTGCATAGAGATGCCACCAGAACTCTGTTTGAACTTAGGTGTGCCAAACTCTGTTATCAGATCATTGTATTTGGTTCCTTCGGTGATGCACCGCATGGCATCTTTGATGTTAGCAACTCAACTACGGCAGGAAATCCAGGAGTGCTCCAACTGTCCCTTCATTCCTGCTACCCTGATTATGCAGGCAGTGACCACGATGAGGTGCTTGGAAAGTTTCTCACTTGAGCGCTTGGAGCTATTGGGAGATTCGGTTCTTAAATATGCTGTTAG

Ace file of the UniGene sp_v3.0_unigene106189

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Dicer-like protein (Fragment) n=1 Tax=Populus trichocarpa RepID=B9IKF4_POPTR	-	-	2.0e-17	51%
FL-Next	Isoform 2 of Endoribonuclease Dicer homolog 3 OS=Arabidopsis thaliana GN=DCL3	-	-	0.0	58%
Sma3	Dicer-like 3	-	-	7.997e-09	-

Source	Gene names
Sma3	At3g43920; DCL1504; DCL904; GSVIVT00032302001; LOC_Os10g34430; OSJNBa0029C15.23; Os01g0909200; Os10g0485600; OsI_04862; OsI_34085; OsJ_04485; OsJ_31945; P0456E05.21; PHYPADRAFT_130425; POPTRDRAFT_260546; RCOM_0707850; T15B3_60;

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	nucleolus	GO:0005730	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	RNA processing	GO:0006396	Biological Process	-
Sma3	maintenance of DNA methylation	GO:0010216	Biological Process	-
Sma3	production of ta-siRNAs involved in RNA interference	GO:0010267	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Ribonuclease III domain	IPR000999	-	-
Sma3	Double-stranded RNA-binding	IPR001159	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Argonaute/Dicer protein, PAZ	IPR003100	-	-
Sma3	Dicer double-stranded RNA-binding fold	IPR005034	-	-
Sma3	Phosphopantetheine attachment site	IPR006162	-	-
Sma3	Helicase/UvrB domain	IPR006935	-	-
Sma3	Zinc finger, C2H2	IPR007087	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3	Zinc finger, C2H2-like	IPR015880	-	-
Sma3	Extracellular solute-binding protein, family 3, conserved site	IPR018313	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT3G43920.2	DCL3, ATDCL3 dicer-like 3 chr3:15753548-15760830 FORWARD LENGTH=1580	2.0e-19	58%
RefSeq	Arabidopsis thaliana	NP_189978.1	protein dicer-like 3 [Arabidopsis thaliana]	2.0e-19	58%
RefSeq	Populus trichocarpa	XP_002324204.1	dicer-like protein, partial [Populus trichocarpa]	8.0e-22	62%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q9LXW7-2

Fln msg: Unexpected stop codon in the beginning of your sequence, Distance to subject end: 543 aas, your sequence is shorter than subject: 111 - 1531

Fln protein: S*PWLSLNVEKSQGKAYDVRPNCIEMPPELCLNLGVPNSVIRSLYLVPSVMHRMASLMLATQLRQEIQECSNCPFIPATLIMQAVTTMRCLESFSLERLELLGDSVLKYAV

Protein Length: 112

Fln nts: CGTCGTGACCTTGGCTGTCACTCAATGTTGAGAAGTCTCAAGGTAAAGCGTATGATGTGAGGCCTAATTGCATAGAGATGCCACCAGAACTCTGTTTGAACTTAGGTGTGCCAAACTCTGTTATCAGATCATTGTATTTGGTTCCTTCGGTGATGCACCGCATGGCATCTTTGATGTTAGCAACTCAACTACGGCAGGAAATCCAGGAGTGCTCCAACTGTCCCTTCATTCCTGCTACCCTGATTATGCAGGCAGTGACCACGATGAGGTGCTTGGAAAGTTTCTCACTTGAGCGCTTGGAGCTATTGGGAGATTCGGTTCTTAAATATGCTGTTAG

Fln Alignment:

AllPine_a_c37933___VEKSQGKAYDVR---PNC-IEMPPELCLNLGVPNSVIRSLYLVPSVMHRMASLMLATQLRQEIQECSNCPF-IPATLIMQAVTTMRCXXXXXXXXXXXXGDSVLKY
Q9LXW7-2______________VVKTEPKAGNVRKRKPNIHAHLPPELLARIDVPRAVLKSIYLLPSVMHRLESLMLASQLREEI-DCSIDNFSISSTSILEAVTTLTCPESFSMERLELLGDSVLKY

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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