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_unigene17905

Length: 565 nt

Origin of reads: Biogeco1 v2 Biogeco3 v1 Uagpf v2 Uma v2

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

UniGene Fasta (sense)

>sp_v2.0_unigene17905
CGTCGTGACCTTGGCTGTCACTCAAATTCCTATTAGATCCAACTTCTTGGAATGACCTAGATGCGTTTTAGTTACCTTCCGCCGCTATCTTTGGCGCCTTCCACTGTGGGCTTGCAGATACATTAATCTGTAGTGTTGGGGACGAAGGATTGTTAGCGCTTGTATCTCTGAGAAGTTCAGATACCTTGCATCACTTCACAGAACAGAGGCATTACTCTTTTGTAAATCCAACATCATGGGATCAACAAACAACCAGTCAGAGAGAGCATTCTCCATCAAGCTATGGCCTCCAAGTGAGAGTACACGCCTGATGCTGGTAGAACGCATGACTGATAATCTCTCTTCAGTTTCATTCTTTTCCAGAAAATATGGCCTTCTGAGCAAAGAAGAAGCTGCAGAAAATGCAAAGAGAATCGAAGAGACAGCATTTCTTGCTGCAAATGACCATGAAGCCAAGGAAACCAATTCAGATGATAGCTCCGTAGTGCAGTTTTATGCAAGAGAAGCCAGTAGACTCATGCTAGAGGCCCTTAAGCGAGGATAAGTGACAGCCAAGGTCACGACG

Ace file of the UniGene sp_v2.0_unigene17905 (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

Source	Descriptions	Term	Type	Identity
AutoFact	Unassigned protein	-	-	-
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	92%
Blast2go	leucine rich repeat-containing	-	-	76%

Source	InterPros	Term	Type	e value	Identity
Sma3	Leucine-rich repeat	IPR001611	-	0.0	-
Sma3	Pentatricopeptide repeat	IPR002885	-	0.0	-

Full-Lengther Next Prediction

Fln status: N-terminus

Fln database: coniferopsida.fasta

Fln subject: A9NW46

Fln msg: Unexpected STOP codon at 3' end. Distance to subject end: 443 aas, your sequence is shorter than subject: 103 - 553

Fln protein: MGSTNNQSERAFSIKLWPPSESTRLMLVERMTDNLSSVSFFSRKYGLLSKEEAAENAKRIEETAFLAANDHEAKETNSDDSSVVQFYAREASRLMLEALKRG*

Protein Length: 104

Fln nts: CGTCGTGACCTTGGCTGTCACTCAAATTCCTATTAGATCCAACTTCTTGGAATGACCTAGATGCGTTTTAGTTACCTTCCGCCGCTATCTTTGGCGCCTTCCACTGTGGGCTTGCAGATACATTAATCTGTAGTGTTGGGGACGAAGGATTGTTAGCGCTTGTATCTCTGAGAAGTTCAGATACCTTGCATCACTTCACAGAACAGAGGCATTACTCTTTTGTAAATCCAACATC_-_ATGGGATCAACAAACAACCAGTCAGAGAGAGCATTCTCCATCAAGCTATGGCCTCCAAGTGAGAGTACACGCCTGATGCTGGTAGAACGCATGACTGATAATCTCTCTTCAGTTTCATTCTTTTCCAGAAAATATGGCCTTCTGAGCAAAGAAGAAGCTGCAGAAAATGCAAAGAGAATCGAAGAGACAGCATTTCTTGCTGCAAATGACCATGAAGCCAAGGAAACCAATTCAGATGATAGCTCCGTAGTGCAGTTTTATGCAAGAGAAGCCAGTAGACTCATGCTAGAGGCCCTTAAGCGAGGATAAGTGACAGCCAAGGTCACGACG

Fln Alignment:

Contig17905___MGSTNNQSERAFSIKLWPPSESTRLMLVERMTDNLSSVSFFSRKYGLLSKEEAAENAKRIEETAFLAANDHEAKETNSDDSSVVQFYAREASRLMLEALKRG*VTAK
A9NW46_______________MGSTNNQAERAFSIKLWPPSESTRLMLVERMTDNLSSVSFFSRKYGLLSKEEAAENAKRIEETAFLAANDHEAKEPNLDDSSVVQFYAREASKLMLEALKRGPTSQK

SNPs (tot: 38)

Position	A %	C %	G %	T %	Probability
401	28		71		1.0
415	85			14	0.993533
416		85	14		0.993533
418	85		14		0.993533
421		71	28		1.0
422	14			85	0.993533
423		16		83	0.994512
424	16	83			0.994512
426		16		83	0.994512
428	16	83			0.994512
429	16	83			0.994512
430		83	16		0.994512
431	83		16		0.994512
432	83			16	0.994512
436			16	83	0.994512
491	80		20		0.995493
495	80	20			0.995493
496	80	20			0.995493
497		80	20		0.995493
498		20		80	0.995493
500	80			20	0.995493
506	25	75			0.996473
507	75		25		0.996473
510	25	75			0.996473
511		25		75	0.996473
514		25	75		0.996473
515		25		75	0.996473
516	25	75			0.996473
518			25	75	0.996473
519			25	75	0.996473
520		75		25	0.996473
523	75	25			0.996473
526	75	25			0.996473
551		33	66		0.997452
559	66	33			0.997452
560	66	33			0.997452
561		33	66		0.997452
562	33		66		0.997452

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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