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_unigene131931

Length: 449 nt

UniGene Fasta

>sp_v3.0_unigene131931
ATGGTTGGTGAGTGGAGGAGGAGAAAGTTATTATGGGTGGTTTCAGGGGAGTGGATCGAAGAGGGATTTCGATAGCATTTCACTGCTGAAGTAGGATTTTGAGAACCTAGCACCCTTTAAGAAGAATTTGTACGAGGAGGTAGAGGAAATCTCCTCTATGACTGAAGATGAGGTCAGGGAATATTGCAAGAGACGTGAAATTACAGTCGATGGCCGGCACGTTCCCAAGCCCGTGAAAATCTTCGTGATGCGGGATTTCCAGAGTATGTTCTTGAAGAGGTTGTAAAGGAAAGCTTTATGGAGCAAACACCTATTCAAGCTCAAGGATGGCTTATGGCTTTGAAAGGGCGGGATTTAACTGGAGATGGGCCTATTGTCTTGGTGTTAGCACCTACACATGAGCTTACTGTCCAGATCCATCAAGAGGCAACTAAATTTTGGGCATCGTC

Ace file of the UniGene sp_v3.0_unigene131931

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	ethylene-responsive RNA helicase [Solanum lycopersicum]	-	-	3.0e-32	52%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	75%
Sma3	DEAD-box ATP-dependent RNA helicase 20	-	-	4.622e-09	-

Source	Gene names
Sma3	At1g55150; ER68; LOC_Os01g10050; MtrDRAFT_AC155896g32v2; Os01g0197200; OsI_00766; OsJ_00740; P0419B01.12; PHYPADRAFT_182655; POPTRDRAFT_826955; RCOM_0312580; RH20; T7N22.9;

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	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	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	e value	Identity
ATG	Arabidoptis thaliana	AT1G55150.1	DEA(D/H)-box RNA helicase family protein chr1:20574634-20577141 FORWARD LENGTH=501	3.0e-33	51%
RefSeq	Arabidopsis thaliana	NP_175911.1	DEAD-box ATP-dependent RNA helicase 20 [Arabidopsis thaliana]	4.0e-33	51%
RefSeq	Populus trichocarpa	XP_002327540.1	predicted protein [Populus trichocarpa]	1.0e-30	51%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: B8LKZ7

Fln msg: Overlapping hits, possible frame ERROR between 244 and 235, Distance to subject end: 305 aas, your sequence is shorter than subject: 149 - 504

Fln protein: WLVSGGGESYYGWFQGSGSKRDFDSISLLK*DFENLAPFKKNLYEEVEEISSMTEDEVREYCKRREITVDGRHVPKPxxxxxDAGFPEYVLEEVVKESFMEQTPIQAQGWLMALKGRDLTGDGPIVLVLAPTHELTVQIHQEATKFWAS

Protein Length: 150

Fln nts: ATGGTTGGTGAGTGGAGGAGGAGAAAGTTATTATGGGTGGTTTCAGGGGAGTGGATCGAAGAGGGATTTCGATAGCATTTCACTGCTGAAGTAGGATTTTGAGAACCTAGCACCCTTTAAGAAGAATTTGTACGAGGAGGTAGAGGAAATCTCCTCTATGACTGAAGATGAGGTCAGGGAATATTGCAAGAGACGTGAAATTACAGTCGATGGCCGGCACGTTCCCAAGCCCxxxxxxxxxxxxxxxGATGCGGGATTTCCAGAGTATGTTCTTGAAGAGGTTGTAAAGGAAAGCTTTATGGAGCAAACACCTATTCAAGCTCAAGGATGGCTTATGGCTTTGAAAGGGCGGGATTTAACTGGAGATGGGCCTATTGTCTTGGTGTTAGCACCTACACATGAGCTTACTGTCCAGATCCATCAAGAGGCAACTAAATTTTGGGCATCGTC

Fln Alignment:

AllPine_a_rep_c85710___LVSGGGESYYGWFQGSGSKRDFDSISLLK*DFENLAPFKKNLYEEVEEISSMTEDEVREYCKRREITVDGRHVPKPVxxxRDAGFPEYVLEEVVKESFMEQTPIQAQGWLMALKGRDL-----------------------------TGDGPIVLVLAPTHELTVQIHQEATKFWAS
B8LKZ7________________LAGGGGGSHYGGFQGSGSKRDFDSISLPKQDFENLIPFEKNFYVETPGIASMTEDEVREYRNRREITIDGRDVPKPVxxxGDAGFPDYVIEEIVKAGFTEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPYLAPGDGPIVLVLAPTRELAVQIQQEAAKFGAS

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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