SustainPineDB

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

Assembly Name: uagpf v2.0

UniGene Name: uagpf_v2_unigene55769

Length: 563 nt

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

UniGene Fasta (sense)

>uagpf_v2_unigene55769
CGTCGTGACCTTGGCTGTCACTCAAATCTCCAGGAAAACCTACAAAGGTGGTGTGCTGGAAACGTCGTGACCTTGGCTGTCACTCAAAATGGAATGTAAATCTAAAGCTCTTGACAAAGGAAAGGGATCTGATGATGCTCCTTCTGCAGAGGCGAAAACCACCTCAGATGAAGGTGGGGATGTGTACTTGGCTTCTTCAAGTACACATGTAGATCATGAGGCATGGTTGATTGACTCAGGTGCATCCTTTCACTTCACTCCCCATAGAGAGTGGTTCTGTGAGTATGAGAAATACGATGGTGGTGATGTCTTCTTAGGAGATGATAGGAAGGCTAGAATCATTGGTCGGGGAAAAGTAAAGTTGAAGTTGCAAGGTGGAAGGGTTAGAACACTTCCGGGTGTTCTACATATTCCTGCATTGGCCAGAAATCTGATTTCTGTAAGCAAGTTGGATTGAGTGACAGCCAAGGTCACGACGAAAGATACCTGCAAGATGGTTCGAGGAGCACTGATATTGATGCGGGGAGTTCGGATTGGAATGAGTGACAGCCAAGGTCACGACG

Ace file of the UniGene uagpf_v2_unigene55769 (antisense)

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

To watch this ACE file you will need an ACE viewer program as Tablet:

Go to the Tablet ACE viewer Web

Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene7355	3/10
SustainPine v2.0	sp_v2.0_unigene83439	6/10

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Gag-Pol polyprotein n=1 Tax=Lotus japonicus RepID=B8YLY7_LOTJA	-	-	5.0e-23	39%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	32%
Blast2go	gag-pol polyprotein	-	-	9.98801e-26	55%

Full-Lengther Next Prediction

Fln status: Putative Complete

Fln database: coniferopsida.fasta

Fln subject: A9NWA6

Fln msg: query STOP codon too far from subject stop. Distance to subject end: 40 aas, putative chimeric sequence, Unexpected STOP codon in 5 prime region, your sequence is shorter than subject: 123 - 173

Fln protein: MECKSKALDKGKGSDDAPSAEAKTTSDEGGDVYLASSSTHVDHEAWLIDSGASFHFTPHREWFCEYEKYDGGDVFLGDDRKARIIGRGKVKLKLQGGRVRTLPGVLHIPALARNLISVSKLD*

Protein Length: 124

Fln nts: CGTCGTGACCTTGGCTGTCACTCAAATCTCCAGGAAAACCTACAAAGGTGGTGTGCTGGAAACGTCGTGACCTTGGCTGTCACTCAAA_-_ATGGAATGTAAATCTAAAGCTCTTGACAAAGGAAAGGGATCTGATGATGCTCCTTCTGCAGAGGCGAAAACCACCTCAGATGAAGGTGGGGATGTGTACTTGGCTTCTTCAAGTACACATGTAGATCATGAGGCATGGTTGATTGACTCAGGTGCATCCTTTCACTTCACTCCCCATAGAGAGTGGTTCTGTGAGTATGAGAAATACGATGGTGGTGATGTCTTCTTAGGAGATGATAGGAAGGCTAGAATCATTGGTCGGGGAAAAGTAAAGTTGAAGTTGCAAGGTGGAAGGGTTAGAACACTTCCGGGTGTTCTACATATTCCTGCATTGGCCAGAAATCTGATTTCTGTAAGCAAGTTGGATTGAGTGACAGCCAAGGTCACGACGAAAGATACCTGCAAGATGGTTCGAGGAGCACTGATATTGATGCGGGGAGTTCGGATTGGAATGAGTGACAGCCAAGGTCACGACG

Fln Alignment:

uagpf_mira_rep_c92857___VDHEAWLIDSGASFHFTPHREWFCEY-EKYDGGDVFLGDDRKARIIGRGKVKLKLQGGRVRTLPGVLHIPALARNLISVSKL
A9NWA6________________IEDDMWIIDNGASRHMMGDQARLSDLNERKTSYKVELGDKSTYPVEGFGQASIKLESGNHVHLSNVLYVPGLEKNLVSISCL

SNPs (tot: 35)

Position	A %	C %	G %	T %	Probability
228		20		80	0.995493
244	88		11		0.923564
251		33		66	1.0
254		11		88	0.991528
258	88	11			0.923564
275	30		70		1.0
289		90		10	0.90298
290	90		10		0.90298
291		90		10	0.90298
293	10		90		0.90298
299		90		10	0.90298
300		20		80	0.999996
301	10	90			0.90298
312			77	22	0.999999
319			77	22	0.999999
326		22		77	0.999999
333	11		88		0.923564
343	88		11		0.923564
365		14		85	0.993533
366	14		85		0.993533
370			14	85	0.993533
376	85	14			0.993533
383			71	28	1.0
384			14	85	0.993533
385	83			16	0.994512
386		66		33	1.0
389	83		16		0.994512
390	16			83	0.994512
392		83	16		0.994512
421		60		40	1.0
456	25		75		0.996474
499	66	33			0.997471
500			66	33	0.997476
501			66	33	0.997476
509	33		66		0.997471

Back

Biología Molecular y Biotecnología de Plantas, Facultad de Ciencias y Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071 Málaga, Spain