SustainPineDB

All assemblies
Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene17020

Length: 1089 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene17020 (antisense)

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	Ribulose bisphosphate carboxylase small chain, chloroplastic n=1 Tax=Pinus thunbergii RepID=RBS_PINTH	-	-	96%
FL-Next	sp=Ribulose bisphosphate carboxylase small chain, chloroplastic; Pinus thunbergii (Japanese black pine) (Pinus thunbergiana).	-	-	96%
Sma3	Ribulose bisphosphate carboxylase small chain	-	-	-

Source	ECs	Term	Type	e value	Identity
Sma3	Ribulose-bisphosphate carboxylase.	EC:4.1.1.39	-	3.777e-27	-

Source	KEGGs	Term	e value	Identity
Sma3	Glyoxylate and dicarboxylate metabolism	00630	3.777e-27	%
Sma3	Carbon fixation in photosynthetic organisms	00710	3.777e-27	%
Sma3	Metabolic pathways	01100	3.777e-27	%

Source	Gene names
Sma3	ATS1A; ATS1B; ATS2B; ATS3B; At1g67090; At5g38410; At5g38420; At5g38430; GSVIVT00017679001; LOC_Os12g19394; LOC_Os12g19470; MXI10.14; MXI10.15; Os12g0291100; Os12g0291400; Os12g0292400; OsI_018348; OsI_38042; OsI_38046; OsJ_17688; OsJ_35811; OsJ_35814; OsJ

Source	GOs	Term	Type	Identity
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	chloroplast thylakoid membrane	GO:0009535	Cellular Component	-
Sma3	chloroplast stroma	GO:0009570	Cellular Component	-
Sma3	chloroplast ribulose bisphosphate carboxylase complex	GO:0009573	Cellular Component	-
Sma3	thylakoid	GO:0009579	Cellular Component	-
Sma3	chloroplast envelope	GO:0009941	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	cytosolic ribosome	GO:0022626	Cellular Component	-
Sma3	thylakoid lumen	GO:0031977	Cellular Component	-
Sma3	apoplast	GO:0048046	Cellular Component	-
Sma3	monooxygenase activity	GO:0004497	Molecular Function	-
Sma3	copper ion binding	GO:0005507	Molecular Function	-
Sma3	ribulose-bisphosphate carboxylase activity	GO:0016984	Molecular Function	-
Sma3	photorespiration	GO:0009853	Biological Process	-
Sma3	carbon fixation	GO:0015977	Biological Process	-
Sma3	reductive pentose-phosphate cycle	GO:0019253	Biological Process	-
Sma3	oxidation-reduction process	GO:0055114	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Ribulose bisphosphate carboxylase small chain, domain	IPR000894	-	-
Sma3	Proteinase inhibitor I3, Kunitz legume	IPR002160	-	-
Sma3	EF-Hand 1, calcium-binding site	IPR018247	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G67090.1	RBCS1A ribulose bisphosphate carboxylase small chain 1A chr1:25048465-25049249 REVERSE LENGTH=180	66%
RefSeq	Arabidopsis thaliana	NP_176880.1	ribulose bisphosphate carboxylase small chain 1A [Arabidopsis thaliana]	66%
RefSeq	Populus trichocarpa	XP_002305162.1	predicted protein [Populus trichocarpa]	68%

Full-Lengther Next Prediction

SNPs (tot: 17)

Position	A %	C %	G %	T %	Probability
251	66		33		0.997452
607		2		97	0.974293
668		3		96	0.98536
670	96	3			0.986325
690		96	3		0.991164
697	1	3		94	0.95615
1004		3		95	0.999999
1007	1	3		94	0.990543
1025		6		93	0.999364
1026	75	18		6	1.0
1027		75	25		1.0
1028	62	25		12	1.0
1029	12	12		12	0.962769
1030	12	25	50	12	1.0
1032	28	14		57	1.0
1033		16	66	16	0.988813
1036			25	75	0.996473

SSRs (tot: 1)

Start position	End position	Sequence	Length
892	906	TGC TGC TGC TGC TGC	15

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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