SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
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Assembly Name: SustainPine v1.1

UniGene Name: sp_v1.1_unigene25300

Length: 524 nt

Origin of reads: Biogeco_1 Biogeco_2 Uagpf

UniGene Fasta

>sp_v1.1_unigene25300
GCTAAAGGAGGAAGAATCAGACTCTACAGCAGAGGAGGAATCAGAAGATGAAGAGCCACAAACTCCGACTGTGAGAAGATCAGTTCGAAAAAGGAGGCAGCTAGGAAGGTGTAGTCCATCTGCTTTTTGTTCAAATTTTTCTTAGCTATTACCGATGATGATCCCAAAACTATGAAGGAAGCAGTAGATTCAGAGGATGGAAAACTCTAGAAAGAGGCCATGGTTGATGAAATGGCATCTTTGCACAAAAATGAGGCATAGGATCTGGTAGAGTTGCCAGCCAGAAGGAAACCCATTGGCAGAAAATGGGTGTTCAAGAAGAAGACAAATGCAGAAGGAAAGGTGGAGAAATACAAAGCTCGGTTGGTAGCAAAAGGTTATTCCCAGGTGCCGGGAATTGATTTTGGTGATATTTTCTCTCCTATTGCTAAGGCAACTTTTATTATATTACTTCTATCTATTGTTGCAACCTTTGATTTTGAGGTAGAACAGATGGATGTGAAGAGAACATTTCTTCATGGGGA

Ace file of the UniGene sp_v1.1_unigene25300

If you push the Download ace button, you will download an ace file of this UniGene.

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Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	Reverse transcriptase n=1 Tax=Picea glauca RepID=Q9M5J7_PICGL	-	-	71%
FL-Next	tr=Reverse transcriptase; Picea glauca (White spruce) (Pinus glauca).	-	-	71%
Blast2go	retrotransposon ty1-copia subclass	-	-	67%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: Q9M5J7

Fln msg: Unexpected stop codon in the beginning of your sequence, Distance to subject end: 351 aas, your sequence is shorter than subject: 174 - 542

Fln protein: AKGGRIRLYSRGGIRR*RATNSDCEKISSKKEAARKV*SICFLFKFFLAITDDDPKTMKEAVDSEDGKL*KEAMVDEMASLHKNEA*DLVELPARRKPIGRKWVFKKKTNAEGKVEKYKARLVAKGYSQVPGIDFGDIFSPIAKATFIILLLSIVATFDFEVEQMDVKRTFLHG

Protein Length: 175

Fln nts: GCTAAAGGAGGAAGAATCAGACTCTACAGCAGAGGAGGAATCAGAAGATGAAGAGCCACAAACTCCGACTGTGAGAAGATCAGTTCGAAAAAGGAGGCAGCTAGGAAGGTGTAGTCCATCTGCTTTTTGTTCAAATTTTTCTTAGCTATTACCGATGATGATCCCAAAACTATGAAGGAAGCAGTAGATTCAGAGGATGGAAAACTCTAGAAAGAGGCCATGGTTGATGAAATGGCATCTTTGCACAAAAATGAGGCATAGGATCTGGTAGAGTTGCCAGCCAGAAGGAAACCCATTGGCAGAAAATGGGTGTTCAAGAAGAAGACAAATGCAGAAGGAAAGGTGGAGAAATACAAAGCTCGGTTGGTAGCAAAAGGTTATTCCCAGGTGCCGGGAATTGATTTTGGTGATATTTTCTCTCCTATTGCTAAGGCAACTTTTATTATATTACTTCTATCTATTGTTGCAACCTTTGATTTTGAGGTAGAACAGATGGATGTGAAGAGAACATTTCTTCATGGGGA

Fln Alignment:

sp_v1.1_unigene25300___FLFKFFLAITDDDPKTMKEAVDSEDGKL*KEAMVDEMASLHKNEA*DLVELPARRKPIGRKWVFKKKTNAEGKVEKYKARLVAKGYSQVPGIDFGDIFSPIAKATFIILLLSIVATFDFEVEQMDVKRTFLHG
Q9M5J7_______________FHSNFSLSITDDDPITVREAVNSEDSKLWKKPMVEEMDSLDKNESWDIVELLARRKSVGRKWLFKKKFNVEGKVEKYKARLVEKGYSQVEGIEFGEIFSPVAKLTSIRFLLSIVVAFDLEVEQMDVKTTFLHG

SNPs (tot: 38)

Position	A %	C %	G %	T %	Probability
154		14		85	0.993533
168	14		71	14	0.984337
173	42		57		1.0
183		71		28	1.0
187	14		85		0.993533
210	14		85		0.993533
215			90	10	0.90298
224	10		90		0.90298
245		90		10	0.90298
255	90		10		0.90298
259	10			90	0.90298
261	10		90		0.90298
271	80		20		0.999996
278		90		10	0.90298
279		90		10	0.90298
280	10		90		0.90298
281	20		80		0.999996
282		80		20	0.999996
283		10		90	0.90298
284	20		80		0.999996
301		84	15		0.999986
316		90		10	0.90298
317	90		10		0.90298
322	10		90		0.90298
327		90		10	0.90298
328	80			20	0.999996
333		80		20	0.999996
335	10		90		0.90298
361	11			88	0.923564
371			87	12	0.992554
372		85	14		0.993533
374	88			11	0.923564
375	88		11		0.923564
376	88		11		0.923564
391			88	11	0.923564
392		88		11	0.923564
394	11		88		0.923564
418		42		42	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