SustainPineDB

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

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene25711

Length: 577 nt

Origin of reads: Biogeco3 v1

UniGene Fasta

>sp_v2.0_unigene25711
TGATACACGTTTGGTATCACCATGGCTGGGAGGGGATACACCCTATGCTGCAGGGTCTGCACAGTCTCCTTGGGACTATGTCTCCCCATCTCCTGTACCAATACGTGCTGGTGGATCTTCAGGTGGTGTAACAAATCCTCGTTCCAGTGTGAGGTCACATCAGTTAAGTTTTCATTCTAGAACCACACAATCTCTATCTCAGGAGAATATGATTGGCAACAAAACATCTTTTGGTAAAGATGAAAACAAAACAATAAGCAAAGAGATGCTGGAAGAAATGGAAGAAGCAGAACGTGATGCTGACCGAGCATGGTATGACAGGGAAGAAGTGGGAACAATGCTAGAGGGTGACTCCTCGTCATTGTTTATTGGGGATGAGACAACCTTCCAGAAAAGGGAGTCTGAAATGGGAAAGCGATTGATTCGGAAAGATGGGACAAAGATGAGTCTCGCACAGAGCAAGAAGATGTCGCAGATGAGTGCAGACAATGCAGAGTGGGAAGACCGCCAGCTAATGAGATCTGGAGCAGTCCGAGGAACAGAAGTGCAAACAGAATTTGAAGATGAAGAAGAAAAC

Ace file of the UniGene sp_v2.0_unigene25711

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	pre-mRNA splicing factor ATP-dependent RNA helicase-like protein [Arabidopsis thaliana]	-	-	5.0e-33	45%
FL-Next	tr=ATP-dependent RNA helicase, putative; Ricinus communis (Castor bean).	-	-	0.0	51%
Blast2go	pre-mrna-splicing factor atp-dependent rna helicase prp16-like	-	-	0.0	70%

Source	InterPros	Term	Type	Identity
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Helicase-associated domain	IPR007502	-	-
Sma3	Domain of unknown function DUF1605	IPR011709	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: tr_plants

Fln subject: B9SMB4

Fln msg: Distance to subject end: 830 aas, your sequence is shorter than subject: 192 - 1269

Fln protein: DTRLVSPWLGGDTPYAAGSAQSPWDYVSPSPVPIRAGGSSGGVTNPRSSVRSHQLSFHSRTTQSLSQENMIGNKTSFGKDENKTISKEMLEEMEEAERDADRAWYDREEVGTMLEGDSSSLFIGDETTFQKRESEMGKRLIRKDGTKMSLAQSKKMSQMSADNAEWEDRQLMRSGAVRGTEVQTEFEDEEEN

Protein Length: 193

Fln nts: TGATACACGTTTGGTATCACCATGGCTGGGAGGGGATACACCCTATGCTGCAGGGTCTGCACAGTCTCCTTGGGACTATGTCTCCCCATCTCCTGTACCAATACGTGCTGGTGGATCTTCAGGTGGTGTAACAAATCCTCGTTCCAGTGTGAGGTCACATCAGTTAAGTTTTCATTCTAGAACCACACAATCTCTATCTCAGGAGAATATGATTGGCAACAAAACATCTTTTGGTAAAGATGAAAACAAAACAATAAGCAAAGAGATGCTGGAAGAAATGGAAGAAGCAGAACGTGATGCTGACCGAGCATGGTATGACAGGGAAGAAGTGGGAACAATGCTAGAGGGTGACTCCTCGTCATTGTTTATTGGGGATGAGACAACCTTCCAGAAAAGGGAGTCTGAAATGGGAAAGCGATTGATTCGGAAAGATGGGACAAAGATGAGTCTCGCACAGAGCAAGAAGATGTCGCAGATGAGTGCAGACAATGCAGAGTGGGAAGACCGCCAGCTAATGAGATCTGGAGCAGTCCGAGGAACAGAAGTGCAAACAGAATTTGAAGATGAAGAAGAAAAC

Fln Alignment:

Contig25711___DTRLVSPWLGGDTPYAAGSAQSPWDYVSPSPVPIRAGGSSGGVTNPRSSVRSHQLSFHSRTTQSLSQENMIGNKTSFGKDENKTISKXXXXXXXXXXXXXXXXXXXXXXVGTMLEGDSSSLFIGDETTFQKRESEMGKRLIRKDGTKMSLAQSKKMSQMSADNAEWEDRQLMRSGAVRGT
B9SMB4_______________DARLVSPWLGGHTPSSTGSAASPWDHIAPSPVPIRASGSSAKSSGSRHGERSHQLTFSSTSSRPLEGERE--DKPYTSEEHHHEITENMRLEMEYNSDRAWYDREEG---STMFDADSSSFYLGDEASFQKKEAELAKRLVRRDGSRMTLAQSKRLSQLTADNAQWEDRQLLRSGAVRGT

SNPs (tot: 11)

Position	A %	C %	G %	T %	Probability
228		80	20		0.995493
304	14	85			0.993533
305		85		14	0.993533
379	14		85		0.993533
380	42		57		1.0
383	57			42	1.0
384		57		42	1.0
388	20	80			0.995493
389		80		20	0.995493
390	80		20		0.995493
392	80		20		0.995493

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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