SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene13071

Length: 1369 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene13071

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	pre-mRNA splicing factor ATP-dependent RNA helicase-like protein [Arabidopsis thaliana]	-	-	0.0	64%
FL-Next	sp=Probable pre-mRNA-splicing factor ATP-dependent RNA helicase; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	40%
Sma3	ATP-dependent RNA helicase, putative	-	-	1.39e-18	-

Source	Gene names
Sma3	AT4g16680; AT4g18460; At1g27900; At1g27900/F13K9.28; At2g35340; At2g47250; At3g26560; At3g62310; At5g13010; CHLREDRAFT_108839; CHLREDRAFT_120088; CHLREDRAFT_121004; CHLREDRAFT_127996; CHLREDRAFT_132956; CHLREDRAFT_185922; F13K9.28; F28J12.120; GSVIVT00002

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	nucleolus	GO:0005730	Cellular Component	-
Sma3	mitochondrion	GO:0005739	Cellular Component	-
Sma3	chloroplast envelope	GO:0009941	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	helicase activity	GO:0004386	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	oxidoreductase activity	GO:0016491	Molecular Function	-
Sma3	mRNA processing	GO:0006397	Biological Process	-
Sma3	RNA splicing	GO:0008380	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site	IPR002464	-	-
Sma3	Ribosomal protein S1, RNA-binding domain	IPR003029	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	Helicase-associated domain	IPR007502	-	-
Sma3	TonB box, conserved site	IPR010916	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Domain of unknown function DUF1605	IPR011709	-	-
Sma3	Nucleic acid-binding, OB-fold	IPR012340	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT5G13010.1	EMB3011 RNA helicase family protein chr5:4122747-4128660 FORWARD LENGTH=1255	71%
RefSeq	Arabidopsis thaliana	NP_196805.2	pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 [Arabidopsis thaliana]	71%
RefSeq	Populus trichocarpa	XP_002316149.1	predicted protein [Populus trichocarpa]	75%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q38953

Fln msg: Distance to subject end: 533 aas, your sequence is shorter than subject: 455 - 1168

Fln protein: VPSPMLVGASPDTRLVSPWLGGDTPYAAGSAQSPWDYVSPSPVPIRAGGSSGGVTNPRSSVRSHQLSFHSRTTQSLSQENMIGNKTSFGKDENKTISKEMLEEMEEAERDADRAWYDREEVGTMLEGDSSSLFIGDEATFQKRESEMGKRLIRKDGTKMSLAQSKKMSQMSADNAEWEDRQLMRSGAVRGTEVQTEFEDEEENRVILLVHDTKPPFLDGRVVFTKQAEPIMPVKDPTSDMAIISRKGSALVREIREKQSMNKSRQRFWELAGSKLGNILGVEKTAEQIDADQAAVGAEGEVDFKEEARFASHMKEKGEAVSEFAKSKTLYEQRQYLPIYSTRDDLLQVVRENQVIVVVGETGSGKTTQLTQYLHEDGYTTYGMVGCTQPRRVAAMSVAKRVSEEMETELGDKVGYAIRFEDVTGPNTIIKYMTDGVLLRETLREPDLDQYSVIVM

Protein Length: 456

Fln nts: CTGTGCCGTCTCCGATGTTAGTTGGTGCATCCCCTGATACACGTTTGGTATCACCATGGCTGGGAGGGGATACACCCTATGCTGCAGGGTCTGCACAGTCTCCTTGGGACTATGTCTCCCCATCTCCTGTACCAATACGTGCTGGTGGATCTTCAGGTGGTGTAACAAATCCTCGTTCCAGTGTGAGGTCACATCAGTTAAGTTTTCATTCTAGAACCACACAATCTCTATCTCAGGAGAATATGATTGGCAACAAAACATCTTTTGGTAAAGATGAAAACAAAACAATAAGCAAAGAGATGCTGGAAGAAATGGAAGAAGCAGAACGTGATGCTGACCGAGCATGGTATGACAGGGAAGAAGTGGGAACAATGCTAGAGGGTGACTCCTCGTCATTGTTTATTGGGGATGAGGCAACCTTCCAGAAAAGGGAGTCTGAAATGGGAAAGCGATTGATTCGGAAAGATGGGACAAAGATGAGTCTCGCACAGAGCAAGAAGATGTCGCAGATGAGTGCAGACAATGCAGAGTGGGAAGACCGCCAGCTAATGAGATCTGGAGCAGTCCGAGGAACAGAAGTGCAAACAGAATTTGAAGATGAAGAAGAAAACAGAGTTATTCTTCTTGTTCATGATACAAAGCCTCCATTTCTGGATGGACGTGTTGTGTTCACAAAACAGGCAGAGCCTATTATGCCAGTAAAAGATCCAACATCAGATATGGCTATCATTTCCCGGAAAGGGTCTGCACTAGTAAGAGAGATCCGTGAGAAACAGAGCATGAACAAATCACGGCAACGCTTTTGGGAGCTTGCAGGATCTAAACTAGGAAATATACTTGGGGTTGAGAAGACAGCAGAGCAGATAGATGCAGACCAGGCAGCAGTTGGTGCAGAGGGTGAAGTTGATTTTAAGGAGGAAGCACGATTTGCATCACACATGAAGGAAAAAGGTGAAGCAGTCAGCGAATTTGCAAAATCAAAGACACTATATGAACAGCGGCAGTATCTTCCGATATACTCCACTCGAGATGATCTCTTGCAGGTTGTACGTGAAAACCAAGTGATTGTGGTAGTCGGGGAGACAGGATCAGGGAAGACTACACAGCTTACACAGTATTTGCACGAGGATGGATATACAACATATGGTATGGTTGGATGCACTCAACCAAGACGTGTTGCAGCTATGAGTGTTGCCAAGCGAGTCAGTGAAGAAATGGAAACTGAATTGGGAGATAAAGTTGGTTATGCCATTCGATTTGAGGATGTAACTGGACCAAATACTATAATCAAGTACATGACAGATGGAGTGTTGCTGCGGGAAACTCTCCGTGAACCAGACCTAGATCAGTACAGTGTAATTGTTATGGA

Fln Alignment:

Contig13071___GKRLIRKDGTKMSLAQSKKMSQMSADNAEWEDRQLMRSGAVR---------GTXXXXXXXXXXXNRVILLVHDTKPPFLDGRVVFTKQAEPIMPVKDPTSDMAIISRKGSALV---REIREKQ------SMNKSRQRFWELAGSKLGNILGVEKTAEQIDADQAAVGAEGEVDFKEEARFASHMKEKGEAVSEFAKSK-TLYEQRQYLPIYSTRDDLLQXXXXXXXXXXXGETGSGKTTQLTQYLHEDGYTTYGMVGCTQPRRVAAMSVAKRVSEEMETELGDKVGYAIRFEDVTGPNTIIKYMTDGVLLRETLREPDLDQYSVIVM
Q38953_______________GIRIVEENDVAPSRRPLKKMSSPE----RWEAKQLIASGVLRVDEFPMYDEDGDGMLYQEEGAEEELEIEMNEDEPAFLQGQTRYSVDMSPVKIFKNPEGSLSRAAALQSALTKERREMREQQQRTMLDSIPKDLNRPWEDPMPETGE----RHLAQELRG--VGLSAYDMPEWKKDAF--------GKTPTFGQRSKLSIQEQRESLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTKGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDENLSQYSVIML

SNPs (tot: 12)

Position	A %	C %	G %	T %	Probability
262		83	16		0.994512
338	14	85			0.993533
339		85		14	0.993533
413	14		85		0.993533
414	42		57		1.0
417	57			42	1.0
418		57		42	1.0
422	16	83			0.994512
423		83		16	0.994512
424	83		16		0.994512
426	83		16		0.994512
1013	40		60		1.0

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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