SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene131470

Length: 424 nt

UniGene Fasta

>sp_v3.0_unigene131470
CGTCGTGACCTTGGCTGTCACTCATTCTAATTGAGTTGCACAAGCCACAAATCATCCATTAACAAGCAATTCAAAGGAAGACTACAACTCAAACCTACACAACTTATTTTGCTGAGGCTTTGATTTTAGAAACTTAAGTAGACAAAAAATATTGTGGTCCAAGCTGCAAGAGTTATTGGCCTAAATATGTTTTCCAAACACTTTCCCTCAAGATGCTTTCATGTTGGGATAGCAGAACATGTCACTTTTGCTGCACGGTTGACTTGTGAAGGCCTAAAGCCTCTCTATGCTATATATTCCTATTTTTTAAAAAAGGGCCTATGATCATGTTATACATAATGTAGACCTGTAGAAATTGACGGATAAAGCAGGGCTAGTTCGAGCAGATGGTTCAATTCATAATGGAGCATTAGATGTGAAACTT

Ace file of the UniGene sp_v3.0_unigene131470

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	1-deoxy-D-xylulose 5-phosphate synthase type I n=3 Tax=Pinaceae RepID=A7LA00_PICAB	-	-	1.0e-18	75%
FL-Next	tr=1-deoxy-D-xylulose 5-phosphate synthase type I; Pinus taeda (Loblolly pine).	-	-	0.0	50%
Sma3	1-deoxy-D-xylulose-5-phosphate synthase	-	-	1.168e-26	-

Source	ECs	Term	Type	e value	Identity
Sma3	1-deoxy-D-xylulose-5-phosphate synthase.	EC:2.2.1.7	-	7.491e-29	-

Source	KEGGs	Term	e value	Identity
Sma3	Terpenoid backbone biosynthesis	00900	7.491e-29	%
Sma3	Biosynthesis of terpenoids and steroids	01062	7.491e-29	%
Sma3	Biosynthesis of alkaloids derived from terpenoid and polyketide	01066	7.491e-29	%
Sma3	Biosynthesis of plant hormones	01070	7.491e-29	%
Sma3	Metabolic pathways	01100	7.491e-29	%
Sma3	Biosynthesis of secondary metabolites	01110	7.491e-29	%

Source	Gene names
Sma3	At4g15560; CLA1; DEF; DXPS; DXS; DXS1; DXS2; DXS2A; DXS2B; Dxs1; GSVIVT00009953001; GSVIVT00011627001; GSVIVT00012707001; GSVIVT00031403001; GSVIVT00031458001; GSVIVT00031462001; HbDXS2; LOC_Os05g33840; OSJNBb0002L09.31; OSJNBb0003E08.7; OSJNBb0014K18.8;

Source	GOs	Term	Type	Identity
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	catalytic activity	GO:0003824	Molecular Function	-
Sma3	1-deoxy-D-xylulose-5-phosphate synthase activity	GO:0008661	Molecular Function	-
Sma3	metabolic process	GO:0008152	Biological Process	-
Sma3	thiamine biosynthetic process	GO:0009228	Biological Process	-
Sma3	chlorophyll biosynthetic process	GO:0015995	Biological Process	-
Sma3	terpenoid biosynthetic process	GO:0016114	Biological Process	-
Sma3	isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway	GO:0019288	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Transketolase, N-terminal	IPR005474	-	-
Sma3	Transketolase-like, pyrimidine-binding domain	IPR005475	-	-
Sma3	Transketolase, C-terminal	IPR005476	-	-
Sma3	Deoxyxylulose-5-phosphate synthase	IPR005477	-	-
Sma3	Transketolase-like, C-terminal	IPR015941	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT4G15560.1	CLA1, DEF, CLA, DXS, DXPS2 Deoxyxylulose-5-phosphate synthase chr4:8884218-8887254 FORWARD LENGTH=717	3.0e-19	64%
RefSeq	Arabidopsis thaliana	NP_193291.1	Deoxyxylulose-5-phosphate synthase [Arabidopsis thaliana]	4.0e-19	64%
RefSeq	Populus trichocarpa	XP_002303416.1	predicted protein [Populus trichocarpa]	5.0e-18	67%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: C6ZG56

Fln msg: Overlapping hits, possible frame ERROR between 315 and 305, Unexpected stop codon in the beginning of your sequence, Distance to subject end: 201 aas, your sequence is shorter than subject: 142 - 707

Fln protein: RRDLGCHSF*LSCTSHKSSINKQFKGRLQLKPTQLILLRL*F*KLK*TKNIVVQAARVIGLNMFSKHFPSRCFHVGIAEHVTFAARLTCEGLKPLYAIYSYxxxxxAYDHVIHNVDL*KLTDKAGLVRADGSIHNGALDVKL

Protein Length: 143

Fln nts: CGTCGTGACCTTGGCTGTCACTCATTCTAATTGAGTTGCACAAGCCACAAATCATCCATTAACAAGCAATTCAAAGGAAGACTACAACTCAAACCTACACAACTTATTTTGCTGAGGCTTTGATTTTAGAAACTTAAGTAGACAAAAAATATTGTGGTCCAAGCTGCAAGAGTTATTGGCCTAAATATGTTTTCCAAACACTTTCCCTCAAGATGCTTTCATGTTGGGATAGCAGAACATGTCACTTTTGCTGCACGGTTGACTTGTGAAGGCCTAAAGCCTCTCTATGCTATATATTCCTATxxxxxxxxxxxxxxxGCCTATGATCATGTTATACATAATGTAGACCTGTAGAAATTGACGGATAAAGCAGGGCTAGTTCGAGCAGATGGTTCAATTCATAATGGAGCATTAGATGTGAAACTT

Fln Alignment:

AllPine_a_rep_c84859___KQFKGRLQLKPTQXXXXXXXXXXXK*TKNIVVQAARV---IGLNMFSKHFPSRCFHVGIAEH--VTFAARLTCEGLKPLYAIYSYxxxxAYDHVIHNVDL*KL-----TDKAGLVRADGSIHNGALDV
C6ZG56________________KQFKGKAPTQTYTTYFAEALISEAEADKNIVAIHAAMGGGTGLNMFSKRFPTRCFDVGIAEQHAVTFAAGLACEGLKPFCAIYSSxxxxAYDQVIHDVDLQKLPVRFAMDRAGLVGADGPTHCGAFDV

SNPs (tot: 2)

Position	A %	C %	G %	T %	Probability
139	33		66		0.997459
141	66			33	0.997453

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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