SustainPineDB

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene4961

Length: 1690 nt

Origin of reads: Biogeco1 v2 Biogeco2 v2 Biogeco3 v1 Uagpf v2 Uma v2

This UniGene was originaly assembled in antisense
ACE File: antisense
Fasta: sense

UniGene Fasta (sense)

Ace file of the UniGene sp_v2.0_unigene4961 (antisense)

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	radical SAM domain-containing protein [Arabidopsis thaliana] gb\|AAK96886.1\| Unknown protein [Arabidopsis thaliana] gb\|AAM10038.1\| unknown protein [Arabidopsis thaliana] gb\|AEE33668.1\| radical SAM domain-containing protein [Arabidopsis thaliana]	-	-	73%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	83%
Blast2go	radical sam domain-containing protein	-	-	80%

Source	GOs	Term	Type	Identity
Blast2go	RNA methylation	GO:0001510	Biological Process	80%
Blast2go	rRNA processing	GO:0006364	Biological Process	80%
Blast2go	S-adenosylmethionine-dependent methyltransferase activity	GO:0008757	Molecular Function	80%
Blast2go	iron-sulfur cluster binding	GO:0051536	Molecular Function	80%
Blast2go	RNA methyltransferase activity	GO:0008173	Molecular Function	80%
Blast2go	mitochondrion	GO:0005739	Cellular Component	80%

Source	InterPros	Term	Type	Identity
Sma3	Ribosomal RNA large subunit methyltransferase RlmN;	IPR004383	-	-
Sma3	Elongator protein 3/MiaB/NifB	IPR006638	-	-
Sma3	Radical SAM	IPR007197	-	-

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: A9NVJ4

Fln msg: Overlapping hits, possible frame ERROR between 530 and 344, atg_distance in limit (1-15): atg_distance = 2,

Fln protein: MLGLSSPICKGFCTLTSCTVDSMVLVKTNGTGIARLRSGLSHPLGTYSFSSIRCSSSTNHVSCNFPDQSSVVSLPKPAIATAGYEKCESAKTLVKGMTYHELEAWVKSxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxRRLQILFSLGDGLIIETVLIPCERGRTTLCVSSQVGCAMNCQFCYTGRMGLKRNLTAAEIVEQVVYACRHFTNEVGPITNVVFMGMGEPLHNLDNVLRAAEIIVDCHGLHFSPRKVTVSTSGLVPQMKRFIRESPCVLAVSLNATTDEVRNWIMPINRKYNLDMLLTMLREEIGRRHKFKVLFEYVMLAGINDSLDDARRLVSLVEGIPCKINLIPFNRHKGSSFIPSTKEQMLAFHKIVADAGYATFIRHSRGNDQMAACGQLGKPGNSQPPRMRAPERFRGTLAF*

Protein Length: 461

Fln nts: ATGGGGGAGGAAGGATA_-_ATGCTGGGCCTGAGCAGCCCAATATGCAAAGGATTTTGCACGCTTACATCCTGTACTGTAGATTCTATGGTTCTGGTTAAAACTAATGGTACTGGTATTGCACGTCTTAGAAGTGGGCTATCCCATCCACTTGGGACCTACTCGTTTTCTTCAATTCGGTGCAGCAGCAGCACTAATCATGTCAGCTGCAATTTTCCGGACCAGTCCAGTGTAGTATCATTGCCTAAGCCTGCCATTGCCACTGCTGGCTATGAAAAATGTGAAAGTGCAAAGACTCTTGTAAAAGGAATGACCTACCATGAACTGGAGGCTTGGGTGAAGTCAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAGAAGGTTACAGATTTTATTCAGTTTGGGAGATGGATTGATCATAGAAACAGTCTTAATTCCATGTGAAAGAGGGCGCACTACTCTGTGTGTGTCCAGTCAAGTTGGATGTGCAATGAACTGCCAGTTTTGCTATACAGGAAGGATGGGGCTAAAAAGAAATTTGACTGCAGCTGAAATAGTGGAGCAGGTTGTTTATGCCTGTCGTCATTTTACAAATGAAGTTGGTCCAATTACAAATGTCGTGTTTATGGGTATGGGTGAGCCATTGCATAATCTCGACAATGTACTCAGGGCTGCAGAGATTATAGTGGATTGTCATGGTCTCCATTTCAGTCCTCGCAAAGTAACAGTTTCCACTAGTGGGCTTGTACCACAAATGAAGCGTTTCATTCGTGAATCTCCTTGTGTGCTCGCTGTTAGTCTTAATGCAACAACAGATGAGGTCCGGAATTGGATTATGCCAATTAACCGCAAATATAATCTTGATATGCTCCTTACTATGTTGAGAGAGGAGATTGGTCGGAGACATAAATTCAAGGTCTTGTTTGAATACGTAATGCTTGCAGGAATAAATGACAGTCTGGATGACGCAAGGCGGCTGGTTAGTCTTGTTGAGGGAATTCCCTGCAAGATAAATCTTATTCCATTCAATCGTCATAAAGGTTCATCATTCATTCCCAGTACAAAAGAGCAGATGCTAGCATTTCACAAAATTGTTGCAGATGCAGGATATGCTACTTTTATTCGTCATAGCCGTGGAAATGATCAGATGGCTGCTTGTGGGCAGCTAGGCAAGCCTGGAAACAGTCAACCTCCACGGATGCGTGCTCCTGAAAGATTTCGGGGTACATTGGCTTTTTGA___TTGGTAATGGATTCTTTAGTGTATCGATGGTCTATTTATGCCATAAGTGGCTATATGTCACACCATACACTATTAGTTCATTTTATAATTTGTGCTTTCATGCCGCAGTGACTACAAAATTGTGGAGTTATCCAGTCAAAGTATTATAATCTAATATTCTTCTTTCTGGGGGCTCCAGATATGACCTTTAGTTGTGTTATTTTCTCGTACATTTCCATTCCATTTATCTGGAGATAGTAAACTGTCATTCAACATTAACGTTTCCCGTGGCAATATATTGTTAGAGTTGTGCTT

Fln Alignment:

Contig4961___GGRIMLGLSSPICKGFC----TLTSCTVDSMVLVKTNGTGIARLRSGLSHPLGTYSFSSIRCSSST-NHVSCNFPDQSSVVSLPKPAIATAGYEKCESAKTLVKGMTYHELEAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxRRLQILFSLGDGLIIETVLIPCERGRTTLCVSSQVGCAMNCQFCYTGRMGLKRNLTAAEIVEQVVYACRHFTNEVGPITNVVFMGMGEPLHNLDNVLRAAEIIVDCHGLHFSPRKVTVSTSGLVPQMKRFIRESPCVLAVSLNATTDEVRNWIMPINRKYNLDMLLTMLREEIGRRHKFKVLFEYVMLAGINDSLDDARRLVSLVEGIPCKINLIPFNRHKGSSFIPSTKEQMLAFHKIVADAGYATFIRHSRGNDQMAACGQLGKPGNSQPPRMRAPERFRGTLA
A9NVJ4______________GGRMMLCLSIPICKGFRRKFPALTFCTLDSMVLGNTNGTGIARLRKELSHPFGTYSYSSIRCCSSRPNHASCNFPDQSIVVSLPKPAIATDGYEKCESAKTLVKGMTYHELEAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGTRKILFSLGDGLIIETVLIPCERGRTTLCVSSQVGCAMNCQFCYTGRMGLKRNLTAAEIVEQVVYARRHFTNEVGPITNVVFMGMGEPLHNFDNVLKAAEIMVDCHGLHFSPRKVTVSTSGLVPQIRRFIRESPCVLAVSLNATTDEVRNWIMPINRKYNLDMLLTMLREEIGQRHKFKVLFEYVMLLGINDSLDDARRLVNLVEGIPCKINLISFNPHEGSSFIPSTQEQMLAFHKIVADAGYATFIRHSRGNDQMAACGQLGKPGNSQPPRMRAPERFQATLA

SNPs (tot: 45)

Position	A %	C %	G %	T %	Probability
246			66	33	0.997452
292	75	25			0.996473
336		80		20	0.995493
403	13	86			0.999973
404			86	13	0.999973
592	10	90			0.90298
593	10	90			0.90298
619	90			10	0.90298
620		80	20		0.999996
622			20	80	0.999996
623	10			90	0.90298
624		11	88		0.923564
626	88		11		0.923564
627		11	11	77	0.968132
628		22		77	0.999999
629	11	11		77	0.968132
631	11		11	77	0.968132
633			10	90	0.90298
635	10			90	0.90298
641		80	20		0.999996
774	75		25		1.0
846	87		12		0.992554
851	12	87			0.992554
852			12	87	0.992554
853	87		12		0.992554
854		12		87	0.992554
855	87	12			0.992554
856	87			12	0.992554
857		12		87	0.992554
858		85	14		0.993533
859	14			85	0.993533
861			14	85	0.993533
912	75		25		0.996473
981	16			83	0.994512
993	66	33			1.0
1060		83	16		0.994512
1358		25		75	0.996473
1359		25		75	0.996473
1466	85		14		0.993533
1489	14		85		0.993533
1510	16		83		0.994512
1516			83	16	0.994512
1518	80			20	0.995493
1519		80	20		0.995493
1575			66	33	0.997452

SSRs (tot: 1)

Start position	End position	Sequence	Length
1502	1513	TGC TGC TGC TGC	12

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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