SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene2553

Length: 1274 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene2553 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	putative COP9 signalosome complex subunit 2 [Oryza sativa Japonica Group]	-	-	0.0	79%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	77%
Sma3	COP9 signalosome complex subunit 2	-	-	2.548e-17	-

Source	Gene names
Sma3	At2g26990; CHLREDRAFT_189898; CSN2; FUS12; GSVIVT00023341001; MICPUCDRAFT_70801; MICPUN_51338; OSTLU_19323; Os01g0279200; OsI_01398; OsJ_01306; Ot01g03300; P0003H10.3; PHATRDRAFT_28818; PHYPADRAFT_133638; PHYPADRAFT_165552; PHYPADRAFT_166775; POPTRDRAFT_5

Source	GOs	Term	Type	Identity
Sma3	cytoplasm	GO:0005737	Cellular Component	-
Sma3	signalosome	GO:0008180	Cellular Component	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	multicellular organismal development	GO:0007275	Biological Process	-
Sma3	red, far-red light phototransduction	GO:0009585	Biological Process	-
Sma3	red or far-red light signaling pathway	GO:0010017	Biological Process	-
Sma3	cullin deneddylation	GO:0010388	Biological Process	-
Sma3	protein catabolic process	GO:0030163	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Proteasome component (PCI) domain	IPR000717	-	-
Sma3	Winged helix-turn-helix transcription repressor DNA-binding	IPR011991	-	-
Sma3	PCI/PINT associated module	IPR013143	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT2G26990.1	FUS12, ATCSN2, COP12, CSN2 proteasome family protein chr2:11519684-11522412 REVERSE LENGTH=439	76%
RefSeq	Arabidopsis thaliana	NP_565632.1	COP9 signalosome complex subunit 2 [Arabidopsis thaliana]	76%
RefSeq	Populus trichocarpa	XP_002330981.1	predicted protein [Populus trichocarpa]	85%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: coniferopsida.fasta

Fln subject: B8LQ67

Fln msg: Separated hits, possible frame ERROR between 174 and 179, your sequence is shorter than subject: 369 - 439

Fln protein: YRLGNYKEMMDAYREMLTYIKSAVTRNFSEKCLNNIIEFVSGSAGQNIDLLQDFYKTxxxRPLKRQKNERLWFKTNLKLCKLWFNRGEYGRMNKTVKELHRSCQREDGTDDHKKGTQLLEVYAIEIQMYTETKNNKKLKQLYNKALTVKSAIPHPRIMGIIHECGGKMHTMERQWVEAATDFFEAFRNYDEAGNQRRIQCLKYLVLANMLMQSEVNPFDAREAKPYKNDPEILAMTNLIAAYQRNEILEFERILKSNRTTIMDDSFIRNHIEDLLKNIRTQVLLKLIKPYTRIRIPFVSKELNIPEKDVEQLLVSLILDSRIPGHIDQVNQLLELGDVRSKGLKKYQAIDKWNTQLHALYQTVAYKIG*

Protein Length: 370

Fln nts: TATCGTTTGGGAAACTATAAAGAAATGATGGATGCTTACCGGGAGATGTTGACATACATTAAATCTGCTGTGACTCGAAACTTCAGTGAGAAGTGTTTAAATAATATCATCGAATTTGTCTCTGGATCGGCCGGTCAAAACATTGATCTATTACAAGATTTTTATAAAACTACxxxxxxAAGGCCCTTGAAGAGGCAAAAAAATGAGAGGCTTTGGTTCAAGACAAATCTCAAGCTTTGCAAGCTCTGGTTTAATAGAGGAGAGTACGGGCGAATGAACAAGACAGTGAAGGAGCTTCACCGATCTTGTCAGAGAGAGGATGGAACAGATGACCATAAAAAGGGCACCCAGCTGTTGGAGGTGTATGCAATTGAGATCCAGATGTACACTGAAACTAAGAACAATAAGAAACTAAAGCAATTGTACAACAAAGCATTGACTGTCAAATCTGCAATACCTCATCCCCGCATCATGGGCATTATTCATGAATGTGGGGGTAAAATGCATACAATGGAACGACAATGGGTTGAAGCAGCTACAGACTTTTTTGAAGCTTTCAGAAATTATGATGAAGCTGGGAACCAACGCAGAATTCAATGCCTCAAATACCTAGTTCTAGCAAACATGCTGATGCAATCTGAAGTGAATCCCTTTGATGCCCGGGAGGCAAAGCCCTATAAAAATGACCCTGAGATCTTGGCCATGACCAATCTTATTGCAGCGTACCAAAGAAATGAAATATTGGAGTTTGAAAGAATACTCAAGAGCAATAGAACAACAATAATGGATGATTCTTTCATTCGCAACCATATTGAAGATTTGTTGAAGAACATAAGGACACAAGTACTTCTAAAGCTTATCAAGCCATATACGAGAATTCGGATACCCTTTGTATCAAAGGAGCTAAATATTCCAGAGAAAGATGTGGAGCAACTTCTTGTGTCTTTAATCTTAGATAGCCGTATTCCAGGGCATATTGATCAGGTTAATCAGCTTTTAGAGCTGGGTGATGTTAGATCCAAGGGTTTGAAAAAATACCAGGCCATAGACAAATGGAATACTCAACTTCATGCTTTGTATCAAACAGTTGCATATAAGATTGGATAACTTTGGACGCTTCTGTGATGGCATATGACAATTGCCTTGTTTTGCCTTCTAATAATGGCTTTTGATCCATGGTTTTTATCTCTTTGTTTATATCTGCTGAGGCATTTTGATTTGTACATCTTGAGTTGCCTTTTTGGATTAAAATTTCTTTCTGAAAAACTATATTTGA

Fln Alignment:

Contig2553___YRLGNYKEMMDAYREMLTYIKSAVTRNFSEKCLNNIIEFVSGSAGQNIDLLQDFYKTTxxRPLKRQKNERLWFKTNLKLCKLWFNRGEYGRMNKTVKELHRSCQREDGTDDHKKGTQLLEVYAIEIQMYTETXXXXXXXXXXXXXLTVKSAIPHPRIMGIIHECGGKMHTMERQWVEAATDFFEAFRNYDEAGNQRRIQCLKYLVLANMLMQSEVNPFDAREAKPYKNDPEILAMTNLIAAYQRNEILEFERILKSNRTTIMDDSFIRNHIEDLLKNIRTQVLLKLIKPYTRIRIPFVSKELNIPEKDVEQLLVSLILDSRIPGHIDQVNQLLELGDVRSKGLKKYQAIDKWNTQLHALYQTVAYKIG
B8LQ67______________YRLGKYKEMMDSYRVMLTYIRSAVTRNYSEKCINNIMDFVSGSASQNFELLQEFYQTTxxKALEEAKNERLWFKTNLKLCKIFFDMGEYGRMNKILKELHKSCRREDGSDDQKKGTQLLEVYAIEIQMYTETKNNKKLKQLYQKALSIKSAIPHPRIMGIIHECGGKMHMAERQWAEAATDFFEAFKNYDEAGNHRRIQCLKYLVLANMLMESEVNPFDGQEAKPYKNDPEILAMTNLVAAYQRNEILEFEKILKSNRRTIMDDPFIRNYIEDLLKNIRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRVHGHIDQVNQLLELGD-RSKGLKKYVAIDKWNTQLRSLYQTVTNKMG

SNPs (tot: 63)

Position	A %	C %	G %	T %	Probability
86	33		33		0.997753
137	66		33		0.997452
463		88		11	0.923564
464	88		11		0.923564
467	88		11		0.923564
470	11		88		0.923564
471		11		88	0.923564
472	11			88	0.923564
475		11	88		0.923564
478			11	88	0.923564
480	88	11			0.923564
482	88	11			0.923564
485	88	11			0.923564
486			11	88	0.923564
487		87	12		0.992554
489			12	87	0.992554
490		87		12	0.992554
491		87	12		0.992554
494		12		87	0.992554
496			12	87	0.992554
497		12		87	0.992554
498		12	87		0.992554
499	12			87	0.992554
500	12			87	0.992554
502			12	87	0.992554
507		12		87	0.992554
508			12	87	0.992554
509	12		87		0.992554
511			12	87	0.992554
541		85	14		0.993533
544			14	85	0.993533
546		85	14		0.993533
547	14			85	0.993533
548		14		85	0.993533
549	14			85	0.993533
551		16	83		0.994512
552		16		83	0.994512
554	16	83			0.994512
556		83	16		0.994512
561	83	16			0.994512
562			16	83	0.994512
564	83	16			0.994512
992		12		87	0.992554
1015	10			90	0.90298
1017		90	10		0.90298
1047		90		10	0.90298
1048			10	90	0.90298
1049	10			90	0.90298
1051	90			10	0.90298
1055		10		90	0.90298
1056	10			90	0.90298
1058		10		90	0.90298
1060	10			90	0.90298
1061	11			88	0.923564
1063	88		11		0.923564
1064	88			11	0.923564
1067	88		11		0.923564
1069	88	11			0.923564
1090			20	80	0.995493
1105			60	40	1.0
1157	75	25			0.996473
1158		25	75		0.996473
1160			75	25	0.996473

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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