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_unigene4663

Length: 549 nt

UniGene Fasta

>sp_v3.0_unigene4663
AATGTAAACCATTCAATGCATCTACGGGAGAAGGGCCCAAGTCTGGAAATGCTGCTGAATTTTTTAGCCAGAGAACTTTTAAAGATCTTGGTTGCAGTGAGGACATGCTTCAAGCCATAAAGGCTCAACAGTTTTTTCATCCTTCGCATATTCAGGCTATGGCTTACAAACATGTTTATGAAGGAAAAAGCTGTATAATTGCTGAGCAAAGTGGATCAGGAAAGACTCTAGCATATCTTGCACCTCTAGTACAGCGTCTGAGAGAGGAAGAACTCCAAGGCAAAAGCAAATCATTTTCCAAGAGCCCGCGTGGACTGATTCTAGTACCTACTGCTGAGTTGGCTGCTCAGGTCCTTCACGTTTGCAGGGCAATTTCCAAAGCAGGAATGCCTTTCAGGTCCATGGTTGCAACAGGAGGATTCAAGTGGAAAACCCAATTAGAAAATCTAGAACAGTGCAGTGACATTCTTATAGTTACTCCTGGTCGTTTTCGTTTCCTTCTGCAAGAAGGAAAGTTACAACTGAACAATCTTTTGAGTATAGTACATT

Ace file of the UniGene sp_v3.0_unigene4663

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	DEAD-box ATP-dependent RNA helicase 50 [Arabidopsis thaliana] sp\|Q8GUG7.2\|RH50_ARATH RecName: Full=DEAD-box ATP-dependent RNA helicase 50 gb\|AAF27002.1\|AC016827_13 putative DEAD/DEAH box helicase [Arabidopsis thaliana] gb\|AAK82522.1\| AT3g06980/F17A9_13 [A	-	-	0.0	67%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	30%
Sma3	DEAD-box ATP-dependent RNA helicase 50	-	-	2.304e-09	-

Source	Gene names
Sma3	At3g06980; F17A9.13; GSVIVT00019748001; HEL; LOC_Os03g01830; OJ1384D03.13; Os03g0108600; OsI_09674; OsJ_09113; POPTRDRAFT_725593; RCOM_1004240; RCOM_1176980; RH50; VITISV_034872;

Source	GOs	Term	Type	Identity
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-

Source	InterPros	Term	Type	Identity
Sma3	RNA helicase, ATP-dependent, DEAD-box, conserved site	IPR000629	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3	RNA helicase, DEAD-box type, Q motif	IPR014014	-	-
Sma3		IPR014021	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT3G06980.1	DEA(D/H)-box RNA helicase family protein chr3:2201531-2204662 FORWARD LENGTH=781	67%
RefSeq	Arabidopsis thaliana	NP_187354.1	DEAD-box ATP-dependent RNA helicase 50 [Arabidopsis thaliana]	67%
RefSeq	Populus trichocarpa	XP_002314343.1	predicted protein [Populus trichocarpa]	65%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: B8LKI3

Fln msg: Distance to subject end: 226 aas, your sequence is shorter than subject: 182 - 477

Fln protein: CKPFNASTGEGPKSGNAAEFFSQRTFKDLGCSEDMLQAIKAQQFFHPSHIQAMAYKHVYEGKSCIIAEQSGSGKTLAYLAPLVQRLREEELQGKSKSFSKSPRGLILVPTAELAAQVLHVCRAISKAGMPFRSMVATGGFKWKTQLENLEQCSDILIVTPGRFRFLLQEGKLQLNNLLSIVH

Protein Length: 183

Fln nts: AATGTAAACCATTCAATGCATCTACGGGAGAAGGGCCCAAGTCTGGAAATGCTGCTGAATTTTTTAGCCAGAGAACTTTTAAAGATCTTGGTTGCAGTGAGGACATGCTTCAAGCCATAAAGGCTCAACAGTTTTTTCATCCTTCGCATATTCAGGCTATGGCTTACAAACATGTTTATGAAGGAAAAAGCTGTATAATTGCTGAGCAAAGTGGATCAGGAAAGACTCTAGCATATCTTGCACCTCTAGTACAGCGTCTGAGAGAGGAAGAACTCCAAGGCAAAAGCAAATCATTTTCCAAGAGCCCGCGTGGACTGATTCTAGTACCTACTGCTGAGTTGGCTGCTCAGGTCCTTCACGTTTGCAGGGCAATTTCCAAAGCAGGAATGCCTTTCAGGTCCATGGTTGCAACAGGAGGATTCAAGTGGAAAACCCAATTAGAAAATCTAGAACAGTGCAGTGACATTCTTATAGTTACTCCTGGTCGTTTTCGTTTCCTTCTGCAAGAAGGAAAGTTACAACTGAACAATCTTTTGAGTATAGTACATT

Fln Alignment:

Contig4663___FKDLGCSEDMLQAIKAQQFFHPSHIQAMAYKHVYEGKSCIIAEQSGSGKTLAYLAPLVQRLREEELQGKSKSFSKSPRGLILVPTAELAAQVLHVCRAISKAGMPFRSMVATGGFKWKTQLENLEQCSDILIVTPGRFRFLLQEGKLQLNNLLSIV
B8LKI3______________FEDYFLKRELLMGIYEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDPKK---------NSIQVLLLVPTRELALQTSQVCKELAKH-LKIQIMVTTGGTSLKDDIMRLYQPVHILVATPGRVLDLTKKGVCNLKDCAMLV

SNPs (tot: 3)

Position	A %	C %	G %	T %	Probability
387	25		75		1.0
388	75	25			1.0
391			75	25	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