SustainPineDB

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene8650

Length: 1473 nt

Origin of reads: Biogeco1 v2 Biogeco3 v1 Uagpf v2 Uma v2

UniGene Fasta

Ace file of the UniGene sp_v2.0_unigene8650

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	RecName: Full=50S ribosomal protein L4, chloroplastic; Short=R-protein L4; Flags: Precursor pdb\|3BBO\|G Chain G, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome emb\|CAA75149.1\| chloroplast ribosom	-	-	55%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	90%
Blast2go	50s ribosomal protein l4	-	-	83%

Source	GOs	Term	Type	Identity
Blast2go	translation	GO:0006412	Biological Process	83%
Blast2go	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	83%
Blast2go	transcription termination, DNA-dependent	GO:0006353	Biological Process	83%
Blast2go	poly(U) RNA binding	GO:0008266	Molecular Function	83%
Blast2go	rRNA binding	GO:0019843	Molecular Function	83%
Blast2go	structural constituent of ribosome	GO:0003735	Molecular Function	83%
Blast2go	plastid large ribosomal subunit	GO:0000311	Cellular Component	83%
Blast2go	chloroplast thylakoid membrane	GO:0009535	Cellular Component	83%
Blast2go	chloroplast stroma	GO:0009570	Cellular Component	83%
Blast2go	cytosolic ribosome	GO:0022626	Cellular Component	83%
Blast2go	nucleus	GO:0005634	Cellular Component	83%

Source	InterPros	Term	Type	Identity
Sma3		IPR015498	-	-
Sma3	Ribosomal protein L4/L1e	IPR002136	-	-
Sma3	Ribosomal protein L4/L1e, bacterial-type	IPR013005	-	-

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: A9NU11

Fln msg:

Fln protein: MDKIYKADNVFTLPEANSHSAMANCASLCLSSLSLSSSSISFSQTLSKFASPFRPQFVPDRQKPHFRSFSVRAQAVTLPVLTFDGERAGEAFLDLKCARPDTARAVVHRGVITELQNRRRGTASTLTRAEVRGGGRKPYQQKGTGRARRGSQRTPLRPGGGVVFGPKPKDWSIKMNKKEKRLAISTALMSAAVSTVVVEDFNDKFERPKTKEFIAALKRWGVEPSEHSLIFSTEVSENVRLSSRNIGTLKVLTPRNLNLYDVLRADKLVFTEGSVEYLNRMYGLSSPDAEGDEFDEEEETLQTVSELDKGEGNLQTIPESEEDGLENTEEPQ*

Protein Length: 334

Fln nts: AAATTCAAAATGAAAGC_-_ATGGATAAAATATACAAAGCGGATAACGTGTTTACTCTTCCAGAAGCCAACAGCCATTCAGCAATGGCGAACTGCGCCTCCCTCTGTTTATCATCCCTATCATTAAGTTCGTCGTCAATCTCATTCTCCCAAACCCTGTCAAAGTTCGCGTCTCCTTTCAGACCCCAATTTGTTCCCGACCGTCAAAAACCTCACTTCCGGTCTTTCTCGGTCCGCGCGCAGGCCGTCACGCTGCCCGTCCTCACCTTCGACGGAGAGAGAGCCGGCGAAGCTTTTCTGGACTTGAAATGCGCCCGCCCGGACACCGCCCGCGCCGTAGTGCACAGGGGCGTCATCACGGAGCTCCAAAACCGGCGGCGGGGCACGGCGTCCACCCTTACCCGGGCGGAAGTGAGGGGCGGAGGGCGTAAACCCTATCAGCAAAAGGGCACAGGTCGAGCCCGTCGCGGATCCCAGAGAACCCCCTTGAGGCCTGGTGGGGGCGTCGTATTCGGTCCTAAGCCCAAGGACTGGAGCATCAAGATGAACAAGAAGGAGAAGCGCCTCGCCATTTCGACGGCCCTGATGAGCGCTGCGGTGAGCACCGTCGTCGTGGAAGATTTCAACGACAAATTCGAGAGGCCCAAGACCAAGGAATTCATTGCGGCCTTGAAGAGATGGGGTGTCGAACCCAGCGAGCACTCGTTGATTTTCAGCACCGAGGTTTCTGAGAACGTCAGGCTTTCAAGCAGGAATATCGGGACGCTGAAGGTTTTGACGCCCAGAAATCTTAATTTATACGATGTTTTGAGGGCCGATAAACTCGTGTTTACCGAAGGTAGCGTAGAGTATTTGAATCGAATGTACGGTCTGTCGTCACCGGATGCCGAAGGGGACGAATTTGATGAGGAAGAAGAAACATTGCAAACTGTTTCTGAGTTGGATAAGGGAGAAGGAAATTTGCAGACCATTCCTGAGTCGGAGGAAGATGGATTAGAGAATACAGAAGAGCCACAATGA___TCTTAGGTTTAGACAAATCTATTTTATAAAGCTCATTTGGCACCAGTTCTGATGTTTGAGCCACATGGCATTTCCACTCTGTTTTCACTCTGGCAGTTGGGGTTTGAATGAGATACGTATTACTTTTTCATAGTATCTATTATCAGAATGTGCATGGGGCTTCCTTTTATGTCTGACATTTTTCATCTTTGTAAATGTCCAACACTATTCATTTCTGTACAAGGTTTGCATCTTGTTGAGATATTCTTTGCGGAAATAGAATGTATCAATAGCCATTTCATTCATCGCTTCAAAAAAACTCTGTAGTCTTTAGATTGCTATTGAACTTTTGGATGTATGAATTTACAGCATCCCCTTCACCCTTTCGACGGACGACGTGCTTTCATTTTAAATTCCAGTGACTGCCTAAGAATTGAACTCTGCAATAGTCTAGTGTATGACCATGATCATATTCATC

Fln Alignment:

Contig8650___MANCAXXXXXXXXXXXXXXXXXXXXXKFASPFRPQFVPDRQKPHFRSFSVRAQAVTLPVLTFDGERAGEAFLDLKCARPDTARAVVHRGVITELQNRRRGTASTLTRAEVRGGGRKPYQQKGTGRARRGSQRTPLRXXXXXXXXXXXXDWSIKMNKKEKRLAISTALMSAAVSTVVVEDFNDKFERPKTKEFIAALKRWGVEPSEHSLIFSTEVSENVRLSSRNIGTLKVLTPRNLNLYDVLRADKLVFTEGSVEYLNRMYGLSSPXXXXXXXXXXXXTLQTVSELDKGEGNLQTIPES-EEDGLENTEEPQ
A9NU11______________MANCVSLSFSSLSLSSSSISFSQTLSKSASTLGPQALPHCQKLHSRTLSVRAQAVTLPVLTFDGERAGEASLDLKCARPDTARAVVHRGVITELQNRRRGTASTLTRAEVRGGGRKPYRQKGTGRARRGSQRTPLRPGGGVIFGPKPKDWSIKMNKKEKRLAISTALMSATVSTVVVEDFNDKFERPKTKEFIEALKRWGVEPSEHTLIFSTEVSENVRLSSRNIGTLKVLTPRNLNLYDVLRADKLVFTEGSVEYLNRMYGLSSPDAEEDESNEEEETLKTVFELDKGEGTLQTISESEEEDGLENTEEPQ

SNPs (tot: 34)

Position	A %	C %	G %	T %	Probability
184		88		11	0.923564
191		22	77		0.999999
199		87		12	0.992554
629		85		14	0.993533
630	85			14	0.993533
676		16	83		0.994512
679			83	16	0.994512
689	83		16		0.994512
781		86	9	4	0.999642
782		90		9	0.999842
783	90	9			0.999842
785	86			13	1.0
786	86	4	9		0.999642
788		9		90	0.999842
792	90		9		0.999842
793	90		9		0.999842
794		9		90	0.999842
796			9	90	0.999842
797	90			9	0.999842
798		9		90	0.999842
801		9	90		0.999842
885			91	8	0.999807
980	16		83		1.0
1087			77	22	1.0
1136	12		87		0.992554
1137		12		87	0.992554
1148		85		14	0.993533
1150		14		85	0.993533
1301		25		75	0.996473
1312	33			66	0.997452
1314	33			66	0.997452
1315	33			66	0.997452
1316	33			66	0.997452
1317	33			66	0.997452

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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