SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene34076

Length: 2112 nt

UniGene Fasta

>sp_v3.0_unigene34076
TATCTAGTTGGTAAAGATCTCGATGCTGCACTCAAGTTCATGAGCTGGATGAATATAGAAGTTGCATCTGAACCTGAGTTAGTCACTTCAGCATTTGAGCGTGCATCTGTTCATCCTAGTGTCTTAAGGAGCGTAAATATAAATGGACTTGAATCTCAATTGGGATATGTTTTCCACAACAAAGGTTTATTAGTAGAGGCAATTACACATGCTTCACAACAAGATTTTGAAGGAGGATGTTGCTACCAGCGGCTGGAGTTCCTTGGGGATTCTGTATTGGACCTGCTGATAACACAGCATCTTTTCTCAGAACATCCTGATCTTCCACCAGGTGTTTTAACAGATTTGCGGTCAGCTGCTGTCAACAACAAAAAATTTGCGCATGTAGCTGTCAAGCACAATTTACATCAATATCTTCGACATGGTTCAGGCATACTTCTGGGCCAAATTACTAGATTTGTAAAGGCTGTTCAAGAGCAGGAGAGCAAAAACCAGTCCACCTCACTTGCACTAGGAGTTGAAGCTCCAAAGGTATTAGGAGACCTAGTGGAAAGCATTGCAGGAGCAATCCTCATAGACAGCAAATTCGATATAAAACAAGTATGGGAAATAATGAGACCCTTGCTGTCACCTATAGTAACACCAGAAACATTGGATTTGCATCCCTTGAGGGAGGTGAGTGAATTGTGTCATTTAAAGGGCTATCCAATTGTCTGGAAGAAAAGCATACAGGAGGGGAAACTAGTTATTGCTACTATGGAAGTTGCTGTTGAGGATAATACTTTAATTGGAAAAGGATGTAAGACGAGTAAAAAGTCTGCAAAGGAAAAGGCCGCCAGAGAAATTTTAAAACAAATGGAGGAACGGGGCATTTGCCATCCTCGCCATCAGAGACTGACTGGTAGAGAGGCTCTTGACACGGAGGCCAGGGGAACCATCAAACGGAGTTTGGAAGAATCTGTTAGTCCTGAAGGCATCTCAAGGAAGAAAACAAGGCTTCTGAACACTTCAGAAGAATGTATTCTCGATTGCCCATGGAAAATTTGAATAGCAGAAAGTCTTTGCACACAGGAGAGGGAACAATAAGGCAACAGAATCCTGATAAGGGCATTGCTCCCTTAATTATTGCTGAAAGATGCAAAAACAAAGGAGAAGCAAATCAAACTCAGGAGTTTCTTCCTAGGAAGAAAGCAAGGGGTATTATGACTTTGGGAAATTCTGGAACATCTCAAGATACCGGTAATCCAAGTGTTGCTTATAATCAGAGATGTTCTCCTTCGGATGAAGGTGGCAATAATTTTGGAGCGAGTTACAATAATATCAATAGGCACGAAACTAATTTTGGAGAAAGCAATAATAATAACAATGGGAGGGAAGCAGTTTCATCACAATTGACTGCTTTGGAAAATAATCGACTCGCTAGCAATAATAGCAATGGGAGCGAAGATATGTTAGGTGCAAGTTACAATAATAACAATGGGAGCGAATCAGTTTCAACACCAGTGATTCCTGTGGCAAATAAACTGCCCCTTAATTCAGGTTCCGAAGCAGCTTGTGTTTCTCTTAGTATGCGTAAAGGAGGTCCGCGTAGTAGCCTGTATGAATTGTGCAAAAGAATGAAATGGGCTGTACCCGATTTTCAGTTGGTAGAACAAGAGCGCTTGCCCCAGACAACAAGATTTGTGTTCCGAGTTGTCTTACACATTCCCAATAGAGAAAAACTTTTAGTCCAAGGCGATAAAAAAATTGACAAGAATAGTGCAAAGGATTCGGCAGCATTGTTAATGCTTCATGATCTTGAGAAACAGGGATTGTGCTTTATAAAACAATGATCGTTTATTTGGTAACCCCAATGGGTGTTCCGACTCACTTCTTGTTTCATGAGTGTTAATCAAGTAACCCGTTGAAAATGGGCAAACAGTACTAACAATTATTTCTTTACAATTGAATCCTAACTACTCTACAGCAAGCTGTCAAGTTAAACTTGGTGGAAGTGCTTTTTCGATTCTTAAAGGTAGTGGATATCTCAGAAACTCTCAGCTTGTAATCTTGATTATCCTATTTATGGAAATGAGTGCAAATTGCCTCTAAACTTGCTTCTTAGATGATTTT

Ace file of the UniGene sp_v3.0_unigene34076

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	CAF protein [Arabidopsis thaliana]	-	-	0.0	47%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	43%
Sma3	Dicer-like protein	-	-	3.451e-16	-

Source	ECs	Term	Type	e value	Identity
Sma3	Ribonuclease III.	EC:3.1.26.3	-	1.077e-09	-

Source	Gene names
Sma3	At1g01040; At3g03300; At3g43920; CAF; DCL1504; DCL1a; DCL1b; DCL901; DCL902; DCL903; DCL904; GSVIVT00025032001; GSVIVT00025923001; GSVIVT00026189001; GSVIVT00032302001; LOC_Os03g02970; LOC_Os10g34430; MtrDRAFT_AC150443g32v2; OJ1705B08.11; OSJNBa0029C15.23

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	nucleolus	GO:0005730	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	cytokinesis	GO:0000910	Biological Process	-
Sma3	RNA processing	GO:0006396	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	Metallophosphoesterase domain	IPR004843	-	-
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	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	Identity
ATG	Arabidoptis thaliana	AT1G01040.2	DCL1 dicer-like 1 chr1:23519-31079 FORWARD LENGTH=1910	49%
RefSeq	Arabidopsis thaliana	NP_171612.1	endoribonuclease Dicer [Arabidopsis thaliana]	49%
RefSeq	Populus trichocarpa	XP_002324204.1	dicer-like protein, partial [Populus trichocarpa]	49%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: coniferopsida.fasta

Fln subject: A9NW09

Fln msg:

Fln protein: YLVGKDLDAALKFMSWMNIEVASEPELVTSAFERASVHPSVLRSVNINGLESQLGYVFHNKGLLVEAITHASQQDFEGGCCYQRLEFLGDSVLDLLITQHLFSEHPDLPPGVLTDLRSAAVNNKKFAHVAVKHNLHQYLRHGSGILLGQITRFVKAVQEQESKNQSTSLALGVEAPKVLGDLVESIAGAILIDSKFDIKQVWEIMRPLLSPIVTPETLDLHPLREVSELCHLKGYPIVWKKSIQEGKLVIATMEVAVEDNTLIGKGCKTSKKSAKEKAAREILKQMEERGICHPRHQRLTGREALDTEARGTIKRSLEESVSPEGISRKKTRLLNTSEECILDCPWKI*

Protein Length: 350

Fln nts: TATCTAGTTGGTAAAGATCTCGATGCTGCACTCAAGTTCATGAGCTGGATGAATATAGAAGTTGCATCTGAACCTGAGTTAGTCACTTCAGCATTTGAGCGTGCATCTGTTCATCCTAGTGTCTTAAGGAGCGTAAATATAAATGGACTTGAATCTCAATTGGGATATGTTTTCCACAACAAAGGTTTATTAGTAGAGGCAATTACACATGCTTCACAACAAGATTTTGAAGGAGGATGTTGCTACCAGCGGCTGGAGTTCCTTGGGGATTCTGTATTGGACCTGCTGATAACACAGCATCTTTTCTCAGAACATCCTGATCTTCCACCAGGTGTTTTAACAGATTTGCGGTCAGCTGCTGTCAACAACAAAAAATTTGCGCATGTAGCTGTCAAGCACAATTTACATCAATATCTTCGACATGGTTCAGGCATACTTCTGGGCCAAATTACTAGATTTGTAAAGGCTGTTCAAGAGCAGGAGAGCAAAAACCAGTCCACCTCACTTGCACTAGGAGTTGAAGCTCCAAAGGTATTAGGAGACCTAGTGGAAAGCATTGCAGGAGCAATCCTCATAGACAGCAAATTCGATATAAAACAAGTATGGGAAATAATGAGACCCTTGCTGTCACCTATAGTAACACCAGAAACATTGGATTTGCATCCCTTGAGGGAGGTGAGTGAATTGTGTCATTTAAAGGGCTATCCAATTGTCTGGAAGAAAAGCATACAGGAGGGGAAACTAGTTATTGCTACTATGGAAGTTGCTGTTGAGGATAATACTTTAATTGGAAAAGGATGTAAGACGAGTAAAAAGTCTGCAAAGGAAAAGGCCGCCAGAGAAATTTTAAAACAAATGGAGGAACGGGGCATTTGCCATCCTCGCCATCAGAGACTGACTGGTAGAGAGGCTCTTGACACGGAGGCCAGGGGAACCATCAAACGGAGTTTGGAAGAATCTGTTAGTCCTGAAGGCATCTCAAGGAAGAAAACAAGGCTTCTGAACACTTCAGAAGAATGTATTCTCGATTGCCCATGGAAAATTTGA___ATAGCAGAAAGTCTTTGCACACAGGAGAGGGAACAATAAGGCAACAGAATCCTGATAAGGGCATTGCTCCCTTAATTATTGCTGAAAGATGCAAAAACAAAGGAGAAGCAAATCAAACTCAGGAGTTTCTTCCTAGGAAGAAAGCAAGGGGTATTATGACTTTGGGAAATTCTGGAACATCTCAAGATACCGGTAATCCAAGTGTTGCTTATAATCAGAGATGTTCTCCTTCGGATGAAGGTGGCAATAATTTTGGAGCGAGTTACAATAATATCAATAGGCACGAAACTAATTTTGGAGAAAGCAATAATAATAACAATGGGAGGGAAGCAGTTTCATCACAATTGACTGCTTTGGAAAATAATCGACTCGCTAGCAATAATAGCAATGGGAGCGAAGATATGTTAGGTGCAAGTTACAATAATAACAATGGGAGCGAATCAGTTTCAACACCAGTGATTCCTGTGGCAAATAAACTGCCCCTTAATTCAGGTTCCGAAGCAGCTTGTGTTTCTCTTAGTATGCGTAAAGGAGGTCCGCGTAGTAGCCTGTATGAATTGTGCAAAAGAATGAAATGGGCTGTACCCGATTTTCAGTTGGTAGAACAAGAGCGCTTGCCCCAGACAACAAGATTTGTGTTCCGAGTTGTCTTACACATTCCCAATAGAGAAAAACTTTTAGTCCAAGGCGATAAAAAAATTGACAAGAATAGTGCAAAGGATTCGGCAGCATTGTTAATGCTTCATGATCTTGAGAAACAGGGATTGTGCTTTATAAAACAATGATCGTTTATTTGGTAACCCCAATGGGTGTTCCGACTCACTTCTTGTTTCATGAGTGTTAATCAAGTAACCCGTTGAAAATGGGCAAACAGTACTAACAATTATTTCTTTACAATTGAATCCTAACTACTCTACAGCAAGCTGTCAAGTTAAACTTGGTGGAAGTGCTTTTTCGATTCTTAAAGGTAGTGGATATCTCAGAAACTCTCAGCTTGTAATCTTGATTATCCTATTTATGGAAATGAGTGCAAATTGCCTCTAAACTTGCTTCTTAGATGATTTT

Fln Alignment:

Contig34076___ALKFMSWMNIEVASEPELVTSAFERASVHPSVLRSVNINGLESQLGYVFHNKGLLVEAITHASQQDFEGGCCYQRLEFLGDSVLDLLITQHLFSEHPDLPPGVLTDLRSAAVNNKKFAHVAVKHNLHQYLRHGSGILLGQITRFVKAVQEQESKNQSTS--LALGVEAPKVLGDLVESIAGAILIDSKFDIKQVWEIMRPLLSPIVTPETLDLHPLREVSELCHLKGYPIVWKKSIQEGKLVIATMEVAVEDNTLIXXXXXXXXXXXXXXXXREILKQMEERGI
A9NW09_______________ALSFVKWLGMDIDIPQEM---PFTR-KLDTGFVSNVNVRYLESLLKYSFRVHTLVVESVTHASYKEPSFSGCYQRLEFLGDAVLDYLITLYFYKTYPGLSPGLLTDLRSAAVNNDCYAQAAVKCNLHQQLRHASSELHNQITEFAKLISSSSASGDHFFGWTTTEVAVPKVLGDLIESIAGAVLVDSEFDTQLVWNAMKPLLEPLVTPKTIKYQPVRELQELCQKEFYTCCFDDSQEEGTSTV-KVEVRVKGDSYIETCEASNKRTAKKLAAEKVLKSLKAAGL

SNPs (tot: 20)

Position	A %	C %	G %	T %	Probability
599	66		33		0.997452
1237	75		25		0.996473
1431	83		16		0.994512
1443	14		85		0.993533
1444		85		14	0.993533
1446	85			14	0.993533
1576		11		88	0.923564
1659	85		14		0.993533
1682			14	85	0.993533
1683	14			85	0.993533
1801	16			83	0.994512
1804	83		16		0.994512
1820		85		14	0.993533
1879	20		80		0.995493
1881			20	80	0.995493
1882			20	80	0.995493
1883		80	20		0.995493
2104			25	75	0.996473
2112	25			75	0.996473
2113	33			66	0.997452

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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