SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene5752

Length: 1329 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene5752 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	pumilio 23 [Arabidopsis thaliana] sp\|Q9C552.1\|PUM23_ARATH RecName: Full=Pumilio homolog 23; Short=APUM-23; Short=AtPUM23 gb\|AAG51785.1\|AC067754_1 unknown protein; 96525-92929 [Arabidopsis thaliana] gb\|AAG52582.1\|AC016529_13 putative RNA-binding domain; 80	-	-	0.0	42%
FL-Next	sp=Pumilio homolog 23; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	41%

Source	Gene names
Sma3	At1g72320; GSVIVT00033992001; LOC_Os10g25110; OSJNBb0061I18.14; Os10g0390100; OsI_33414; OsJ_31384; PHYPADRAFT_171461; POPTRDRAFT_553831; RCOM_0333710; T10D10.21; T9N14.7; VITISV_027501;

Source	GOs	Term	Type	Identity
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	RNA-directed DNA polymerase activity	GO:0003964	Molecular Function	-
Sma3	small conjugating protein ligase activity	GO:0019787	Molecular Function	-
Sma3	RNA-dependent DNA replication	GO:0006278	Biological Process	-
Sma3	post-translational protein modification	GO:0043687	Biological Process	-
Sma3	regulation of protein metabolic process	GO:0051246	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3	Ubiquitin-conjugating enzyme, E2	IPR000608	-	-
Sma3	Pumilio RNA-binding repeat	IPR001313	-	-
Sma3	Armadillo-like helical	IPR011989	-	-
Sma3		IPR015706	-	-
Sma3	Ubiquitin-conjugating enzyme/RWD-like	IPR016135	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G72320.1	APUM23, PUM23 pumilio 23 chr1:27228984-27232580 REVERSE LENGTH=753	45%
RefSeq	Arabidopsis thaliana	NP_177376.1	pumilio 23 [Arabidopsis thaliana]	45%
RefSeq	Populus trichocarpa	XP_002303333.1	predicted protein [Populus trichocarpa]	49%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q9C552

Fln msg: Overlapping hits, possible frame ERROR between 354 and 348, Distance to subject end: 46 aas, your sequence is shorter than subject: 443 - 753

Fln protein: LDKTSLRAFPNLLKFVASKILEYSRDSVAVLRVDTFGSLVLQTILKLLVGDKEAVVRVITVLLGCSENNVMKEGKVLEDATVQNVLDLMMDPIGSHLMEVILEVAPDSLYMEILNxxxxHSLLEIATHESGNFVVQSLVSSSRHQGQVNMIWGEIGSKFTELLKARKPGVVASLIGACRRFQTHQRECCRALAHAVNSDSASPNCIVPHVLHLENFSSDTGRSKWQWPSGNKMSVLGCVMLQIIFNYPSDFIQQFCSSFASMEIDHILEAAKDPGGSRVIEAFLSSNAPLKHKHRVISKLRGHFGVLAQRPSSSFTVSKCFLAADLALKEAIASELAYVQAELSRLKHGPHLLRICDVTRYSKGPEQWRSSQSSKQSTRQAFAEVFGSEGEAKREDDTIMVSCNEEATEIPKKKSKKSKRDRGMNNIGEAKREDDVVMVSCNE

Protein Length: 444

Fln nts: CTGGACAAGACATCATTGCGGGCTTTTCCAAATCTGTTGAAGTTTGTTGCAAGCAAGATCTTAGAATATTCCAGAGATAGTGTTGCAGTTCTACGAGTAGACACCTTTGGCAGTCTTGTCTTACAGACCATTTTGAAATTACTAGTGGGAGACAAAGAAGCTGTGGTAAGGGTGATAACTGTCCTTTTGGGTTGTTCTGAAAACAATGTTATGAAAGAAGGCAAGGTGTTAGAGGATGCTACAGTACAGAACGTCTTAGACCTTATGATGGATCCAATTGGCAGCCATTTAATGGAGGTTATTCTGGAGGTGGCACCAGATTCGCTTTACATGGAAATCTTGAATxxxxxxxxxxxxCATTCCTTGCTTGAAATTGCAACTCATGAATCTGGCAACTTTGTTGTCCAATCATTGGTTTCTTCTTCAAGACACCAGGGTCAAGTAAATATGATCTGGGGTGAAATTGGTTCTAAGTTCACAGAGCTACTAAAAGCGAGAAAACCAGGAGTAGTTGCTTCTCTCATAGGTGCTTGTCGCCGTTTTCAGACGCATCAACGAGAGTGTTGTCGAGCATTAGCCCATGCTGTCAATTCTGATTCTGCTTCTCCAAACTGCATTGTACCACATGTTCTTCATCTGGAAAATTTCTCAAGTGATACAGGGAGATCCAAGTGGCAATGGCCATCTGGAAATAAGATGTCGGTTCTTGGTTGTGTAATGTTGCAAATCATTTTCAATTATCCAAGTGACTTCATTCAGCAGTTTTGCTCAAGCTTTGCATCCATGGAAATTGATCATATTCTTGAAGCTGCAAAAGATCCTGGTGGTAGTCGAGTAATTGAAGCTTTCCTTTCTTCCAATGCTCCATTAAAGCATAAGCATAGAGTTATTTCAAAGTTACGTGGACATTTTGGTGTATTGGCACAGCGGCCATCTAGCTCATTTACTGTGTCAAAGTGCTTTCTAGCAGCTGATTTGGCACTTAAGGAGGCTATAGCTTCTGAACTGGCCTATGTGCAAGCAGAACTCTCAAGATTAAAACATGGTCCACATCTGTTAAGAATTTGTGATGTGACTAGGTATTCAAAAGGACCTGAACAGTGGAGGTCATCTCAAAGTTCAAAACAATCAACTCGTCAGGCCTTTGCTGAGGTATTTGGTTCTGAAGGGGAAGCCAAAAGGGAAGACGATACTATTATGGTGTCTTGCAATGAAGAAGCAACAGAAATCCCTAAAAAAAAGAGCAAAAAAAGTAAGAGGGATAGAGGGATGAATAATATAGGGGAAGCCAAAAGGGAAGACGATGTTGTTATGGTGTCTTGCAATGAAG

Fln Alignment:

Contig5752___RAFPNLLKFVASKILEYSRDSVAVLRVDTFGSLVLQTILKLLVGDKEAVVRVITVLLGCSENNVMKEGKVLEDATVQNVLDLMMDPIGSHLMEVILEVAPDSLYMEILNRxxRHSLLEIATHESGNFVVQSLVSSSRHQGQVNMIWGEIGSKFTELLKARKPGVVASLIGACRRFQTHQRECCRALAHAVNSDSASPNCIVPHVLHLENFSSDTGRSKWQWPSGNKMSVLGCVMLQIIFNYPSDFIQQFCSSFASMEIDHILEAAKDPGGSRVIEAFLSSNAPLKHKHRVISKLRGHFGVLAQRPSSSFTVSKCFLAADLALKEAIASELAYVQAELSRLKHGPHLLRICDVTRYSKGPEXXXXXXXXXXXXXQAFAEVFGSEGEAKREDDTIMVSCNEEATE
Q9C552______________QGFPGMLTYLLSGLLSCSREDMKYLQVDQYSSLVLQTALRLMLKQDEQLLEIIPLILRCNSTNKKVEGFHIETNVAKEILESMKDNSFSHLVEVILEVAPESLYNEMFNKxxKNSLFELSVDRCANFVIQALISHARDQEQMGIMWEELAPRFKDLLEQGKSGVVASLIAVSQRLQSHENKCCEALVGAVCSTNESRISILPRLLFLDYYFGCRDKSTWEWAPGAKMHVMGCLILQGIFKFSSDHIQPYITSLTSMKAEYITETAKDSSGARVIEAFLASDAATKQKRRLIIKLRGHFGELSLHTSGSFTVEKCFDACNLTLREAIASELLDVKVDLSKTKQGPYLLRKLDIDGYASRPDQWKSRQEAKQSTYNEFCSAFGS-NKSNFPKNTFVSDASEDAAQ

SNPs (tot: 21)

Position	A %	C %	G %	T %	Probability
154		33		66	1.0
278	75		25		0.996473
414	80			20	0.995493
488		12		87	0.992554
506	87		12		0.992554
521	87		12		0.992554
622	12	87			0.992554
623	87			12	0.992554
624	87			12	0.992554
632		71		28	1.0
645		16	83		0.994512
902		33		66	0.997452
953	20		80		0.995493
957		75		25	0.996473
975	25		75		0.996473
986		80		20	0.995493
1112	16	83			0.994512
1113	16	83			0.994512
1217	77		11		0.968132
1239	12		75	12	0.975346
1241	87			12	0.992554

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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