SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene30995

Length: 317 nt

Origin of reads: Uagpf v2

UniGene Fasta

>sp_v2.0_unigene30995
GAAGAAGCATTAGAAAATTTGGAAAAAGTACTTATAAGATGTAAAGGAACAAATCTTTCATTAAGTCATGAAAAATGTTTTATGATGTTTACTGAAGGGATTGTTTTAGGACATCATATTTCGGGAGATGGGATTAAGGTTGATAGATCAAAAGTTGAAGTCATCTCCAAGTTACCTATTCCAAATTGTCAAAGAGATGTTAGAAGTTTTCTTGGGTTTACTGGGTATTATAGAAGATTTATTGAAAACTTCACCAAGATAGCATCTCCGCTCTTCAAATTACTTACAAAAGATGAGTGACAGCCAAGGTCACGACG

Ace file of the UniGene sp_v2.0_unigene30995

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Integrase n=1 Tax=Populus trichocarpa RepID=Q0ZCD0_POPTR	-	-	2.0e-25	58%
FL-Next	sp=Uncharacterized mitochondrial protein AtMg00860; Arabidopsis thaliana (Mouse-ear cress). Mitochondrion.	-	-	0.0	41%
Blast2go	retrotransposon gag protein	-	-	1.39486e-29	72%

Source	InterPros	Term	Type	Identity
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Phosphotransferase system, HPr serine phosphorylation site	IPR002114	-	-
Sma3	KID repeat	IPR003900	-	-
Sma3	Retrotransposon gag protein	IPR005162	-	-
Sma3	Nitrite/sulphite reductase iron-sulphur/siroheam-binding site	IPR006066	-	-
Sma3	Zinc finger, PMZ-type	IPR006564	-	-
Sma3	Zinc finger, SWIM-type	IPR007527	-	-
Sma3	Peptidase aspartic, catalytic	IPR009007	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	Beta tubulin, autoregulation binding site	IPR013838	-	-
Sma3	Aldehyde dehydrogenase, conserved site	IPR016160	-	-
Sma3	Homeobox, conserved site	IPR017970	-	-
Sma3	DNA methylase, N-4 cytosine-specific, conserved site	IPR017985	-	-
Sma3	Ribosomal protein L33, conserved site	IPR018264	-	-
Sma3	MULE transposase domain	IPR018289	-	-

Full-Lengther Next Prediction

Fln status: Putative N-terminus

Fln database: sp_plants

Fln subject: P92523

Fln msg: Unexpected STOP codon at 3' end. Distance to subject end: 53 aas, No stop codon before M and low homology subject, your sequence is shorter than subject: 73 - 158

Fln protein: MMFTEGIVLGHHISGDGIKVDRSKVEVISKLPIPNCQRDVRSFLGFTGYYRRFIENFTKIASPLFKLLTKDE*

Protein Length: 74

Fln nts: GAAGAAGCATTAGAAAATTTGGAAAAAGTACTTATAAGATGTAAAGGAACAAATCTTTCATTAAGTCATGAAAAATGTTTT_-_ATGATGTTTACTGAAGGGATTGTTTTAGGACATCATATTTCGGGAGATGGGATTAAGGTTGATAGATCAAAAGTTGAAGTCATCTCCAAGTTACCTATTCCAAATTGTCAAAGAGATGTTAGAAGTTTTCTTGGGTTTACTGGGTATTATAGAAGATTTATTGAAAACTTCACCAAGATAGCATCTCCGCTCTTCAAATTACTTACAAAAGATGAGTGACAGCCAAGGTCACGACG

Fln Alignment:

AllPineV4_c13969___SHEKCFMMFTEGIVLGHH--ISGDGIKVDRSKVEVISKLPIPNCQRDVRSFLGFTGYYRRFIENFTKIASPLFKLLTKD
P92523_______________NRKKCAFGQPQIAYLGHRHIISGEGVSADPAKLEAMVGWPEPKNTTELRGFLGLTGYYRRFVKNYGKIVRPLTELLKKN

SNPs (tot: 8)

Position	A %	C %	G %	T %	Probability
30	66	33			0.997476
60	75			25	0.996473
104			75	25	0.996473
125	25		75		0.996474
139	50		50		1.0
185	66		33		0.997461
196	33		66		0.997452
197	66		33		0.997459

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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