SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene201923

Length: 885 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene201923 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Putative polyprotein n=1 Tax=Oryza sativa Japonica Group RepID=Q7Y141_ORYSJ	-	-	0.0	49%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	51%
Sma3	Retrotransposon protein, putative, Ty1-copia subclass	-	-	1.093e-28	-

Source	Gene names
Sma3	AT4g04380; AT4g10460; AT4g21360; At2g05390; At2g05960; At2g07550; At2g13930; At2g15650; At2g15700; At2g17490; At2g21460; B1110B01.13; B1110B01.4; F11I4_21; F28L22.3; F7L13.40; F9K21.100; GSVIVT00019821001; H0306F03.15; H0413E07.4; LOC_Os03g26290; LOC_Os03

Source	GOs	Term	Type	Identity
Sma3	phosphopyruvate hydratase complex	GO:0000015	Cellular Component	-
Sma3	chromatin	GO:0000785	Cellular Component	-
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	cytoplasm	GO:0005737	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	intrinsic to membrane	GO:0031224	Cellular Component	-
Sma3	apoplast	GO:0048046	Cellular Component	-
Sma3	nucleotide binding	GO:0000166	Molecular Function	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	chromatin binding	GO:0003682	Molecular Function	-
Sma3	sequence-specific DNA binding transcription factor activity	GO:0003700	Molecular Function	-
Sma3	catalytic activity	GO:0003824	Molecular Function	-
Sma3	RNA-directed DNA polymerase activity	GO:0003964	Molecular Function	-
Sma3	dihydrofolate reductase activity	GO:0004146	Molecular Function	-
Sma3	aspartic-type endopeptidase activity	GO:0004190	Molecular Function	-
Sma3	serine-type endopeptidase activity	GO:0004252	Molecular Function	-
Sma3	endonuclease activity	GO:0004519	Molecular Function	-
Sma3	exonuclease activity	GO:0004527	Molecular Function	-
Sma3	peroxidase activity	GO:0004601	Molecular Function	-
Sma3	phosphopyruvate hydratase activity	GO:0004634	Molecular Function	-
Sma3	transmembrane signaling receptor activity	GO:0004888	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	peptidase activity	GO:0008233	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	potassium ion transmembrane transporter activity	GO:0015079	Molecular Function	-
Sma3	kinase activity	GO:0016301	Molecular Function	-
Sma3	phosphotransferase activity, alcohol group as acceptor	GO:0016773	Molecular Function	-
Sma3	nucleoside-triphosphatase activity	GO:0017111	Molecular Function	-
Sma3	tRNA dihydrouridine synthase activity	GO:0017150	Molecular Function	-
Sma3	heme binding	GO:0020037	Molecular Function	-
Sma3	manganese ion binding	GO:0030145	Molecular Function	-
Sma3	nutrient reservoir activity	GO:0045735	Molecular Function	-
Sma3	protein dimerization activity	GO:0046983	Molecular Function	-
Sma3	flavin adenine dinucleotide binding	GO:0050660	Molecular Function	-
Sma3	NADP binding	GO:0050661	Molecular Function	-
Sma3	glycolysis	GO:0006096	Biological Process	-
Sma3	chromatin assembly or disassembly	GO:0006333	Biological Process	-
Sma3	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	-
Sma3	proteolysis	GO:0006508	Biological Process	-
Sma3	glycine biosynthetic process	GO:0006545	Biological Process	-
Sma3	potassium ion transport	GO:0006813	Biological Process	-
Sma3	apoptotic process	GO:0006915	Biological Process	-
Sma3	response to oxidative stress	GO:0006979	Biological Process	-
Sma3	signal transduction	GO:0007165	Biological Process	-
Sma3	tRNA processing	GO:0008033	Biological Process	-
Sma3	nucleotide biosynthetic process	GO:0009165	Biological Process	-
Sma3	DNA integration	GO:0015074	Biological Process	-
Sma3	phosphorylation	GO:0016310	Biological Process	-
Sma3	transposition	GO:0032196	Biological Process	-
Sma3	innate immune response	GO:0045087	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Toll/interleukin-1 receptor homology (TIR) domain	IPR000157	-	-
Sma3	Peptidase, cysteine peptidase active site	IPR000169	-	-
Sma3	Peptidase S8/S53, subtilisin/kexin/sedolisin	IPR000209	-	-
Sma3	Enolase	IPR000941	-	-
Sma3	Chromo domain/shadow	IPR000953	-	-
Sma3	tRNA-dihydrouridine synthase	IPR001269	-	-
Sma3	CCAAT-binding transcription factor, subunit B	IPR001289	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Leucine-rich repeat	IPR001611	-	-
Sma3	Dihydrofolate reductase domain	IPR001796	-	-
Sma3	F-box domain, cyclin-like	IPR001810	-	-
Sma3	Pleckstrin homology domain	IPR001849	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Germin	IPR001929	-	-
Sma3	Haem peroxidase, plant/fungal/bacterial	IPR002016	-	-
Sma3	DNA methylase, N-6 adenine-specific, conserved site	IPR002052	-	-
Sma3	Phosphotransferase system, HPr serine phosphorylation site	IPR002114	-	-
Sma3	NB-ARC	IPR002182	-	-
Sma3	Short-chain dehydrogenase/reductase SDR	IPR002198	-	-
Sma3	Argonaute/Dicer protein, PAZ	IPR003100	-	-
Sma3	Stem cell self-renewal protein Piwi	IPR003165	-	-
Sma3	HhH-GPD domain	IPR003265	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	K+ potassium transporter	IPR003855	-	-
Sma3	Putative 5-3 exonuclease	IPR004859	-	-
Sma3	Retrotransposon gag protein	IPR005162	-	-
Sma3	Cupin 1	IPR006045	-	-
Sma3	GHMP kinase N-terminal domain	IPR006204	-	-
Sma3	Mevalonate/galactokinase	IPR006206	-	-
Sma3	Zinc finger, PMZ-type	IPR006564	-	-
Sma3	Zinc finger, SWIM-type	IPR007527	-	-
Sma3	HAT dimerisation	IPR008906	-	-
Sma3		IPR010256	-	-
Sma3	Leucine-rich repeat 3	IPR011713	-	-
Sma3	Dihydrofolate reductase	IPR012259	-	-
Sma3	EGF-like region, conserved site	IPR013032	-	-
Sma3		IPR013084	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	Leucine-rich repeat-containing N-terminal, type 2	IPR013210	-	-
Sma3	ABC-2 type transporter	IPR013525	-	-
Sma3	GHMP kinase, C-terminal domain	IPR013750	-	-
Sma3	Aldolase-type TIM barrel	IPR013785	-	-
Sma3	RmlC-like jelly roll fold	IPR014710	-	-
Sma3	Ribosomal protein S5 domain 2-type fold, subgroup	IPR014721	-	-
Sma3	Domain of unknown function DUF1785	IPR014811	-	-
Sma3	Protein kinase, ATP binding site	IPR017441	-	-
Sma3	F-box associated interaction domain	IPR017451	-	-
Sma3	Peptidase A2A, retrovirus RVP subgroup	IPR018061	-	-
Sma3	Asp/Glu racemase, active site	IPR018187	-	-
Sma3	tRNA-dihydrouridine synthase, conserved site	IPR018517	-	-
Sma3	Germin, manganese binding site	IPR019780	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	ATMG00710.1	ORF120 Polynucleotidyl transferase, ribonuclease H-like superfamily protein chrM:207553-207915 REVERSE LENGTH=120	7.0e-17	48%
RefSeq	Arabidopsis thaliana	NP_085530.1	hypothetical protein ArthMp063 (mitochondrion) [Arabidopsis thaliana]	9.0e-17	48%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: B8LKX7

Fln msg: Unexpected stop codon in the beginning of your sequence, Unexpected STOP codon at 3' end. Distance to subject end: 54 aas, your sequence is shorter than subject: 260 - 407

Fln protein: PKQHDNR*RSHLENQLK*NVRFGHLHYKALPEARKVVTGMPDFGNNHKGVCKGCAEGKHTRGPFPSSVTKTSEILQLVHSDLSGMLPVTSLGGCSYYMTFTDDFSRKTWIYFLKKKDEAFMWFRTFKALVENMTGKKIKILRTDNGTEYESNEFKDFCREAGIKRETTTAYTPEQNGVAERKNRTIVEAARAMLCDQGLPKFLWGEAANTAVYIQNRCPHSALDSKTPEEVFSGKKPDVSHFRIFGCPVYFHVTERKEK*

Protein Length: 261

Fln nts: GACCAAAGCAGCACGATAATAGGTGAAGGAGTCACCTTGAAAATCAATTGAAGTAGAATGTCAGATTTGGACACCTTCATTACAAGGCTCTTCCCGAAGCAAGGAAGGTGGTGACAGGGATGCCTGATTTTGGAAATAATCATAAAGGTGTATGTAAGGGCTGTGCTGAAGGAAAACATACAAGGGGACCTTTCCCCTCAAGTGTCACAAAGACATCTGAGATATTGCAACTGGTCCATTCTGATCTTTCCGGTATGTTGCCTGTAACATCCCTGGGGGGATGTTCTTACTATATGACATTTACTGATGACTTCTCTCGCAAAACCTGGATATACTTCTTGAAGAAGAAGGATGAGGCTTTCATGTGGTTCCGTACCTTCAAAGCCTTGGTGGAAAATATGACCGGAAAGAAGATCAAGATTTTGAGGACTGACAATGGCACTGAATATGAGTCAAATGAGTTCAAAGACTTTTGCAGAGAAGCTGGCATTAAGAGGGAGACTACCACTGCATATACTCCTGAGCAGAATGGTGTTGCTGAACGCAAGAATAGGACTATTGTGGAAGCTGCCCGTGCCATGCTATGTGACCAAGGTCTTCCAAAGTTTCTGTGGGGAGAAGCTGCAAATACTGCTGTGTACATTCAAAACCGATGCCCTCATTCCGCTTTGGACTCCAAAACTCCCGAAGAGGTTTTCTCTGGTAAGAAACCTGATGTCTCACATTTTAGAATTTTTGGATGTCCTGTCTATTTTCATGTGACCGAAAGAAAAGAGAAGTAAGCTGGATGCTATGCATGAAGAATATGAGGCTATTATGAAGAATGATGTCTGGGATGTGGTCCCGAGACCGAAGGACAAATCTGTTGTCACCGCTATATGGCTC

Fln Alignment:

AllPine_b_rep_c46051___RFGHLHYKALPEARK--VVTGMPDFGNNHKGVCKGCAEGKHTRGPFPSSVT-KTSEILQLVHSDLSGMLPVTSLGGCSYYMTFTDDFSRKTWIYFLKKKDEAFMWFRTFKALVENMTGKKIKILRTDNGTEYESNEFKDFCREAGIKRETTTAYTPEQNGVAERKNRTIVEAARAMLCDQGLPKFLWGEAANTAVYIQNRCPHSALDSKTPEEVFSGKKPDVSHFRIFGCPVYFHVTERKEK
B8LKX7________________RMGHLNYKSLSLMKRFEMVYGLPKISQS-QGVCEGCMSGKQHMEKFIKGKSWRAKTPLHLVHSDLMGPLEHPSISGSRYVLTFIDDYSRRIWVYFLKNKDEVFEKFKEFKAFVEKQSGKSIKILRTDNGKEYVNKEFDHYCKYNGIKREHTVPYTPQQNGVAERKNRTLMEMARCMLHARNMDPKFWAEAINTATYIVNRTPTIAVKHKTPEEAWSRRKPTVSHFKVFGCDVYVHIPDEKRK

SNPs (tot: 16)

Position	A %	C %	G %	T %	Probability
362	16		83		0.994512
386	13			86	0.999973
387	13	80		6	0.999961
388	20			80	1.0
396	86		13		0.999973
468	88			11	0.923564
469	11			88	0.923564
483		87		12	0.992554
564	33		66		1.0
572	33		66		1.0
584		83		16	0.994512
617	20		80		0.995493
618	20		80		0.995493
628	20		80		0.995493
633		80		20	0.995493
655	80	20			0.995493

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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