SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene5909

Length: 1235 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene5909

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	DsRNA-binding protein LH1 n=11 Tax=Brassica RepID=Q5IZK8_BRAOC	-	-	2.0e-30	45%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	31%
Sma3	Gb\|AAD20688.1	-	-	3.449e-09	-

Source	Gene names
Sma3	AT1G09700; At1g09700; At3g26932; BcpLH; DRB1501; F21M12.9; GSVIVT00019816001; GSVIVT00031077001; GSVIVT00037908001; MA4_106O17.54; OsI_31979; OsI_37189; PHYPADRAFT_34761; POPTRDRAFT_174629; POPTRDRAFT_209177; POPTRDRAFT_595499; RCOM_1039650; lh; rbp2;

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	nuclear dicing body	GO:0010445	Cellular Component	-
Sma3	double-stranded RNA binding	GO:0003725	Molecular Function	-
Sma3	miRNA binding	GO:0035198	Molecular Function	-
Sma3	identical protein binding	GO:0042802	Molecular Function	-
Sma3	response to auxin stimulus	GO:0009733	Biological Process	-
Sma3	response to cytokinin stimulus	GO:0009735	Biological Process	-
Sma3	response to abscisic acid stimulus	GO:0009737	Biological Process	-
Sma3	production of ta-siRNAs involved in RNA interference	GO:0010267	Biological Process	-
Sma3	production of miRNAs involved in gene silencing by miRNA	GO:0035196	Biological Process	-
Sma3	mRNA cleavage involved in gene silencing by miRNA	GO:0035279	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Double-stranded RNA-binding	IPR001159	-	-
Sma3	Pentatricopeptide repeat	IPR002885	-	-
Sma3	Double-stranded RNA-binding-like	IPR014720	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT1G09700.1	HYL1, DRB1 dsRNA-binding domain-like superfamily protein chr1:3137960-3140118 REVERSE LENGTH=419	4.0e-31	46%
RefSeq	Arabidopsis thaliana	NP_563850.1	dsRNA-binding hyponastic leave 1 protein [Arabidopsis thaliana]	5.0e-31	46%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: A9NUQ0

Fln msg:

Fln protein: MTKGDMSGIIMFKNQLQEYVQKASLPKPSYKTTQEGPAHQPKFTSTVIVNGISYVSPPSDFRNRKAAEHAAARVALEELGFVPNPLHEMGRYKNLLQEYTQKRSLPLPNYRCEGSGKLHSPTYVCTVEVSGIEYTGGAANTKKEAQTNAARVALQALESQAVDSVSQGTVPNIFPSQGVGSVVLTSPVEVPPRKRDREVQSVSEENETAKTKQKMTASNSMQVENGQGMPTVGDPQSAPVKESEKHGQGMPTVGDPQSAPVKESEKHSQKESSQMQQDRLNVEGEVALQAGEEEKHSQKESSQMQQDRVNVEGEVALQAGEEGSEKLQHHEECNPLLRLT*

Protein Length: 342

Fln nts: ATGGGGATTTTAACCCCAAATACAAGAAAATGAGTTCAACCCAAGCTCCCTAACCCAACTTAACTATCCACTAGTGAATGCACGCTTATCCGTCTTCTCAGGAAACGCAGGCACTATTATGATGCACTGTCACAACATTCATGCCATTTACAAGGGCACAGGAGAAGTCTTCGTAGAGGTTGAAGAAGCAGAGATCCCACCAAATTTCC_-_ATGACCAAAGGAGATATGTCGGGCATTATAATGTTCAAGAACCAGTTGCAGGAATATGTGCAGAAAGCATCCCTGCCCAAGCCTTCTTACAAGACTACACAAGAAGGGCCTGCCCATCAGCCGAAATTCACATCAACTGTTATTGTCAATGGGATCAGCTATGTTTCTCCTCCCTCAGATTTCAGGAACCGCAAGGCTGCTGAGCATGCTGCAGCGCGAGTTGCTTTAGAGGAGTTGGGTTTCGTTCCTAATCCACTGCATGAGATGGGACGATATAAGAATCTGCTTCAGGAGTATACACAAAAGCGTAGTTTACCACTTCCTAACTATCGCTGCGAAGGTTCTGGAAAGTTGCATTCACCAACTTATGTATGTACGGTTGAAGTCTCTGGGATTGAATATACCGGGGGTGCTGCAAACACTAAAAAGGAAGCACAAACGAACGCTGCCCGAGTAGCCTTACAGGCACTTGAATCACAGGCTGTTGATTCTGTCTCTCAGGGCACTGTCCCTAACATTTTTCCCTCTCAGGGTGTTGGTTCTGTTGTTTTGACTTCTCCAGTTGAAGTCCCTCCAAGAAAAAGGGATAGAGAAGTACAATCAGTCTCCGAAGAGAATGAGACTGCCAAAACAAAACAGAAGATGACAGCGAGTAATTCTATGCAAGTTGAAAATGGTCAGGGAATGCCAACTGTTGGGGATCCACAATCAGCACCTGTAAAAGAATCAGAGAAGCATGGTCAGGGAATGCCAACTGTTGGGGATCCACAATCAGCACCTGTAAAAGAATCAGAGAAGCATTCCCAAAAAGAGTCTTCCCAGATGCAGCAAGACCGACTAAATGTGGAGGGTGAAGTTGCACTTCAAGCGGGAGAAGAAGAGAAGCATTCCCAAAAAGAGTCTTCTCAGATGCAGCAAGACCGAGTAAATGTGGAGGGTGAAGTTGCACTTCAAGCGGGAGAAGAAGGTTCTGAGAAGCTTCAACATCATGAAGAATGTAATCCACTCCTAAGACTCACTTGA___TTC

Fln Alignment:

Contig5909___MFKNQLQEYVQKASLPKPSYKTTQEGPAHQPKFTSTVIVNGISYVSPPSDFRNRKXXXXXXXXXXXXXL---GFVPNPLHEM---GRYKNLLQEYTQKRSLPLPNYRCEGSGKLHSPTYVCTVEVSGIEYTGGAANTKKEAQTNAARVALQALESQAVDSVSQGTVPNIFPSQGVGSVVLTSPVEVPPRKRDREVQSVSEENETAKTKQKMTASNSMQVENGQGMPTV-------GDPQSAPVKESEKHGQGMPTVGDPQSAP
A9NUQ0______________MFKGRLQEYTQKNSFPLPVYDTVNEGQDHIPRFKCTVTVNGARYDSPPG-FNHKKPAQNAAAEAAVKKLVNQGLL--PIEEVILPKKPKNVLEDIALKKNMPPPSYKFSKEGEAHCPTFTAIVEINGAFYAGDPANSKKDATNKAACKAIRAIDPHYFQAESIINNGSEHPTEECDVSKSDSKIPADNWTSNNQIVGGSDSHLPANCIEKVTVENAPAVEKVSEKRNVENPCGAGEDPENSKVKNAFGAEKSIPNINHASSVP

SNPs (tot: 9)

Position	A %	C %	G %	T %	Probability
284		88	11		0.923564
285		88	11		0.923564
286		88	11		0.923564
309	11			88	0.923564
774	33	66			1.0
865		40		60	1.0
910	20			80	0.995493
933		15	84		0.999986
970	20	80			0.999996

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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