SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene11761

Length: 1205 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene11761 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	ribosomal protein S1-like RNA-binding domain-containing protein [Arabidopsis thaliana] dbj\|BAB01847.1\| unnamed protein product [Arabidopsis thaliana] gb\|AAK83625.1\| AT3g23700/MYM9_3 [Arabidopsis thaliana] gb\|AAM98102.1\| At3g23700/MYM9_3 [Arabidopsis thali	-	-	0.0	58%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	80%

Source	Gene names
Sma3	At3g23700; GSVIVT00033518001; LOC_Os03g62780; MICPUCDRAFT_64062; MICPUN_80015; MRPS1; OSJNBa0032G11.21; OSTLU_30354; Os03g0844900; OsI_14295; OsJ_13343; Ot03g00340; PHYPADRAFT_132762; PHYPADRAFT_147942; POPTRDRAFT_246437; RCOM_1307020; VITISV_006784;

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	ribosome	GO:0005840	Cellular Component	-
Sma3	chloroplast stroma	GO:0009570	Cellular Component	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	transferase activity	GO:0016740	Molecular Function	-
Sma3	response to cold	GO:0009409	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Ribosomal protein S1, RNA-binding domain	IPR003029	-	-
Sma3	Carbamoyl-phosphate synthetase, large subunit, ATP-binding	IPR005479	-	-
Sma3	Nucleic acid-binding, OB-fold	IPR012340	-	-
Sma3	EF-Hand 1, calcium-binding site	IPR018247	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT3G23700.1	Nucleic acid-binding proteins superfamily chr3:8531689-8533742 REVERSE LENGTH=392	58%
RefSeq	Arabidopsis thaliana	NP_566737.1	ribosomal protein S1-like RNA-binding domain-containing protein [Arabidopsis thaliana]	58%
RefSeq	Populus trichocarpa	XP_002321102.1	predicted protein, partial [Populus trichocarpa]	56%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: coniferopsida.fasta

Fln subject: A9NXR9

Fln msg: Overlapping hits, possible frame ERROR between 279 and 278, your sequence is shorter than subject: 306 - 381

Fln protein: GHLPKRRAADWKKAETSKKNREIFEGKVEGSNSGGVLVRFHSLQGFLPYSQMSPSHLIKVGSKVLSEVAKDLMGSTLSLKVIEVSEEEETLIxxSEKQAMWEKFSIKVGDVFEGRVSLVARFGAFVELRFPDGGYYVDGLVHISEVSWDLVRDVRDVLKEGDDVRVKVVQIDVEKSRLSFSIKQLQADPLYETLDTLMSQEGTLNTVTSTADDVVPSEPLPDLEQICEELLREKGITNVKIGRRVLEKRVVSQDLELWLSNMPVEGGKFTLLARAGRLVQEVHLETSIEREGIKQAVQRVMGRVL*

Protein Length: 307

Fln nts: GGGCATCTGCCAAAGCGGAGAGCTGCAGATTGGAAGAAGGCAGAAACATCTAAAAAAAATCGTGAAATATTTGAAGGAAAGGTTGAGGGATCAAACAGTGGAGGTGTGCTAGTGCGTTTTCACTCCCTACAAGGCTTTTTACCTTATTCTCAGATGAGTCCTTCTCATTTGATAAAAGTTGGGAGCAAGGTACTTTCAGAGGTTGCAAAAGACTTAATGGGTTCTACACTTTCCCTGAAGGTAATTGAAGTTAGTGAGGAAGAGGAGACATTGATTxxxxxxTCTGAGAAGCAGGCAATGTGGGAAAAGTTTTCTATCAAGGTGGGAGATGTATTTGAAGGAAGGGTCAGCTTAGTCGCTAGGTTTGGTGCCTTCGTAGAATTGCGCTTTCCTGATGGTGGTTACTATGTTGATGGATTGGTTCATATATCTGAGGTTTCATGGGATTTGGTTCGTGATGTACGAGATGTATTAAAGGAAGGTGACGATGTTCGAGTTAAAGTTGTACAAATTGATGTAGAAAAATCAAGGTTGTCATTCTCAATCAAACAGTTGCAGGCAGATCCTTTGTATGAGACGTTGGATACATTGATGTCACAAGAAGGCACGTTGAACACAGTTACATCAACTGCTGATGATGTAGTGCCTAGTGAACCTCTTCCAGATTTAGAGCAAATATGCGAAGAATTGCTTCGGGAAAAGGGAATAACCAATGTTAAAATTGGAAGACGAGTGCTTGAAAAACGCGTTGTTTCCCAAGACTTGGAGCTTTGGCTTTCAAATATGCCAGTTGAGGGTGGCAAATTCACCCTTCTCGCTCGTGCTGGCAGACTGGTACAAGAAGTACACTTGGAGACTTCCATTGAGAGGGAGGGGATCAAGCAAGCAGTGCAAAGGGTAATGGGAAGAGTTCTTTAAGTGCTTGCAGTAGCTCCTCCGGAGACCAAACACTTTCTATGGGTGAACATGTCAAGTTATTCTTTTGGGAAGTCATTATCATTTCCATTAAGTTCCTTATTGGTATTTCTGCAGTGTAAATAACCTTACGGATGCTTTGATTGCAACATAATCTTGCCTTGGGCATTCAGAATACAATTGGCTTATCAGCACACAATTGATTAGATATCACGACAAGAAATGAGCTGCCGCGACAACAAAATAACCTCCCTTTTTGTACAATATGATAGCATGTCAATAATATATTCAA

Fln Alignment:

Contig11761___RRAADWKKAETSKKNREIFEGKVEGSNSGGVLVRFHSLQGFLPYSQMSPSHLIKVGSKVLSEVAKDLMGSTLSLKVIEVSEEEETLIxSEKQAMWEKFSIKVGDVFEGRVSLVARFGAFVELRFPDGGYYVDGLVHISEVSWDLVRDVRDVLKEGDDVRVKVVQIDVEKSRLSFSIKQLQADPLYETLDTLMSQEGTLNTVTSTADDVVPSEPLPDLEQICEELLREKGITNVKIGRRVLEKRVVSQDLELWLSNMPVEGGKFTLLARAGRLVQEVHLETSIEREGIKQAVQRVMGRVL
A9NXR9_______________RSAVDWKKAETYKGNGEIVEGKVDGSNSGGVLVRFHSLQGFLPYSQMSPSLLLKDRSKTISESAKDLIGSTLSLKVIEVSEEENMLIxSEKQAMWEKFSINEGDVFEGRVSSVTKFGAFVNLRFPDGGYYVDGLVHISEVSWDLVRDVRDILKKGDDVRVKVIQINVEKSRLAFSIKQLQADPLFETLDTLMPQEDTLNLGTSTADGVVPSEPLPDLEQICKELLQEEGITDVKIGRQVLEKRVVSQDLELWLSNMPVEGGKFTLLARAGRQVQEVYLETSLERVGIKQAVQRVMGRVL

SNPs (tot: 38)

Position	A %	C %	G %	T %	Probability
352			25	75	0.996473
418		60		40	1.0
445	25		75		0.996473
484		33		66	1.0
515	33			66	0.997452
516	33			66	0.997452
518		66	33		0.997452
519		66		33	0.997452
527	66		33		0.997452
531		25		75	0.996473
618		33		66	1.0
620	66		33		1.0
643	33			66	1.0
678	40			60	1.0
681	10	90			0.90298
683	50		50		1.0
707			80	20	0.995493
732	33		66		0.997452
737		33		66	0.997452
772		83		16	0.994512
778	83	16			0.994512
780		83	16		0.994512
786	80		20		0.995493
788	80	20			0.995493
791		20		80	0.995493
794	80	20			0.995493
795		80	20		0.995493
841	50		50		1.0
858		50		50	1.0
863	50		50		1.0
934	50		50		1.0
940		42		57	1.0
966		42		57	1.0
967		57		42	1.0
987	42		14		1.0
1014		80		20	0.995493
1026		60	40		1.0
1045			40	60	1.0

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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