SustainPineDB

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

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene127176

Length: 570 nt

UniGene Fasta

>sp_v3.0_unigene127176
AAGAAGGGATGTGATCAGGTTACCAAACAACTTCGCATGGATGGTTGGCCGGCATTATCCATCCACGGTGATAAAAGCCAGGCCGAAAGGGACTGGGTGTTGGGAGAGTTTAAGGCTGGCAAAAGCCCTATCATGACTGCTACGGATGTTGCTGCCCGTGGTTTGGGAGCTGTCAATTGAGGTGTAATTGGCATCAGAACCAACAGCTTCTGTGCGAATAAGCCATTGCTTGTTTGAATCTCATGGGGCTGACGCATTTCATCAAATTGGGAGTCGGCGGGCTGCTTGCCAGTATTCCGAAGGATGGATTGTAGCTTGGCGGTGGTTCGATACAAGCTCTGTTTGTGATGGTGAACACCACTGCCGCCGCCATTGCTGTGGTCCACATGGAGCTGGCAGTATGTGCAGCCCGATTGACTTCTGCAGCATGGCGCCCTTATCCCTTTAAGGTGGGCACATTCCATCGTAAATGGCCATTAATGTAATGGACAAATAGTAAGCCTTTTCTTGGACTTTGTGGATTAGGACGTACATCAGATTGGTGTACAGCTTGTTATTGTAATGCAAATC

Ace file of the UniGene sp_v3.0_unigene127176

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	RecName: Full=DEAD-box ATP-dependent RNA helicase 20	-	-	1.0e-23	92%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	100%
Sma3	DEAD-box ATP-dependent RNA helicase 30	-	-	6.609e-08	-

Source	ECs	Term	Type	e value	Identity
Sma3	Hydrolases, Acting on acid anhydrides, In phosphorous-containing anhydrides.	EC:3.6.1.-	-	1.179e-11	-

Source	KEGGs	Term	e value	Identity
Sma3	Purine metabolism	00230	1.179e-11	%
Sma3	Lipopolysaccharide biosynthesis	00540	1.179e-11	%
Sma3	Folate biosynthesis	00790	1.179e-11	%
Sma3	Metabolic pathways	01100	1.179e-11	%

Source	Gene names
Sma3	At1g55150; At5g63120; CHLREDRAFT_136376; DBP2; DRH1; ER68; F7A10.10; GSVIVT00015999001; GSVIVT00019684001; GSVIVT00034161001; LOC_Os01g07740; LOC_Os01g10050; LOC_Os01g68320; LOC_Os11g46240; MDC12.8; MICPUCDRAFT_33435; MICPUN_82978; MtrDRAFT_AC155896g32v2;

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	RNA binding	GO:0003723	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	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	GO:0000184	Biological Process	-
Sma3	rRNA processing	GO:0006364	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	RNA helicase, ATP-dependent, DEAD-box, conserved site	IPR000629	-	-
Sma3	WW/Rsp5/WWP	IPR001202	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Carbohydrate/puine kinase, PfkB, conserved site	IPR002173	-	-
Sma3	Protein-tyrosine phosphatase-like, PTPLA	IPR007482	-	-
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	e value	Identity
ATG	Arabidoptis thaliana	AT1G55150.1	DEA(D/H)-box RNA helicase family protein chr1:20574634-20577141 FORWARD LENGTH=501	2.0e-28	90%
RefSeq	Arabidopsis thaliana	NP_175911.1	DEAD-box ATP-dependent RNA helicase 20 [Arabidopsis thaliana]	3.0e-28	90%
RefSeq	Populus trichocarpa	XP_002327540.1	predicted protein [Populus trichocarpa]	4.0e-29	94%

Full-Lengther Next Prediction

Fln status: Putative C-terminus

Fln database: coniferopsida.fasta

Fln subject: C0PQ26

Fln msg: query STOP codon too far from subject stop. Distance to subject end: 109 aas, putative chimeric sequence, your sequence is shorter than subject: 60 - 593

Fln protein: KKGCDQVTKQLRMDGWPALSIHGDKSQAERDWVLGEFKAGKSPIMTATDVAARGLGAVN*

Protein Length: 61

Fln nts: AAGAAGGGATGTGATCAGGTTACCAAACAACTTCGCATGGATGGTTGGCCGGCATTATCCATCCACGGTGATAAAAGCCAGGCCGAAAGGGACTGGGTGTTGGGAGAGTTTAAGGCTGGCAAAAGCCCTATCATGACTGCTACGGATGTTGCTGCCCGTGGTTTGGGAGCTGTCAATTGA___GGTGTAATTGGCATCAGAACCAACAGCTTCTGTGCGAATAAGCCATTGCTTGTTTGAATCTCATGGGGCTGACGCATTTCATCAAATTGGGAGTCGGCGGGCTGCTTGCCAGTATTCCGAAGGATGGATTGTAGCTTGGCGGTGGTTCGATACAAGCTCTGTTTGTGATGGTGAACACCACTGCCGCCGCCATTGCTGTGGTCCACATGGAGCTGGCAGTATGTGCAGCCCGATTGACTTCTGCAGCATGGCGCCCTTATCCCTTTAAGGTGGGCACATTCCATCGTAAATGGCCATTAATGTAATGGACAAATAGTAAGCCTTTTCTTGGACTTTGTGGATTAGGACGTACATCAGATTGGTGTACAGCTTGTTATTGTAATGCAAATC

Fln Alignment:

AllPine_a_rep_c69050___KKGCDQVTKQLRMDGWPALSIHGDKSQAERDWVLGEFKAGKSPIMTATDVAARGL
C0PQ26________________KKGCDQVTKQLRMDGWPALSIHGDKSQAERDWVLGEFKAGKSPIMTATDVAARGL

SNPs (tot: 2)

Position	A %	C %	G %	T %	Probability
229		83		16	0.994512
301	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