SustainPineDB

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

Assembly Name: biogeco2 v2.0

UniGene Name: biog2_v2.0_unigene5958

Length: 542 nt

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

UniGene Fasta (sense)

>biog2_v2.0_unigene5958
ATGGGGCTGAGTAGGTGACTTGATTGTTTGGAGGAGAAAACAAATGGGAGTGGGAAGAATGGTGAGAGGAAAAACCGAGATGAAGAGGATTGAGAACACCAGCAGCAGGCAAGTTACGTTTACTAAGCGTAGGAATGGTTTACTGAAGAAAGCTTACGAGCTCTCGGTGCTCTGCGATGCGGAAATTGGACTTATGATTTTCTCTCCTAGGGGGAAGCTCCATGAATTCGCCAGTACCAGCATGCAGAAAGTGTTGGAGAGGTATCACGGTACGAATGATGTCACTCAAGAGCATGATAATGAGGATTTACACAGGAAAATTGCAAATATGAAAGAGAGAATTAGGATTCTCCAGTCAACACAGAGAAATATGGTGGGGGAGGATCTGGCCACATTTTCAGTGATGGAATTAAATGAACTGGAGGCCCAAGCTGATCGGGCATTGCACAGTATCCGAGCACGAAAGTCTGAAATATTAATGGCTCAAGTGGAACAACTTAAAGCACAGGTATCTCTCTTAAGTGAGGAGAATGAACTCCTTC

Ace file of the UniGene biog2_v2.0_unigene5958 (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:

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Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene14588	6/19
SustainPine v2.0	sp_v2.0_unigene23566	13/19

Source	Descriptions	Term	Type	e value	Identity
AutoFact	putative MADS box transcription factor PrMADS5 [Pinus radiata]	-	-	1.99965e-42	57%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	69%
Blast2go	dal3 protein	-	-	0.0	77%

Source	InterPros	Term	Type	e value	Identity
Sma3	Transcription factor, MADS-box	IPR002100	-	0.0	-
Sma3	Transcription factor, K-box	IPR002487	-	0.0	-

Full-Lengther Next Prediction

Fln status: N-terminus

Fln database: coniferopsida.fasta

Fln subject: A9P2G7

Fln msg: Distance to subject end: 40 aas, your sequence is shorter than subject: 166 - 201

Fln protein: MGVGRMVRGKTEMKRIENTSSRQVTFTKRRNGLLKKAYELSVLCDAEIGLMIFSPRGKLHEFASTSMQKVLERYHGTNDVTQEHDNEDLHRKIANMKERIRILQSTQRNMVGEDLATFSVMELNELEAQADRALHSIRARKSEILMAQVEQLKAQVSLLSEENELL

Protein Length: 167

Fln nts: ATGGGGCTGAGTAGGTGACTTGATTGTTTGGAGGAGAAAACAA_-_ATGGGAGTGGGAAGAATGGTGAGAGGAAAAACCGAGATGAAGAGGATTGAGAACACCAGCAGCAGGCAAGTTACGTTTACTAAGCGTAGGAATGGTTTACTGAAGAAAGCTTACGAGCTCTCGGTGCTCTGCGATGCGGAAATTGGACTTATGATTTTCTCTCCTAGGGGGAAGCTCCATGAATTCGCCAGTACCAGCATGCAGAAAGTGTTGGAGAGGTATCACGGTACGAATGATGTCACTCAAGAGCATGATAATGAGGATTTACACAGGAAAATTGCAAATATGAAAGAGAGAATTAGGATTCTCCAGTCAACACAGAGAAATATGGTGGGGGAGGATCTGGCCACATTTTCAGTGATGGAATTAAATGAACTGGAGGCCCAAGCTGATCGGGCATTGCACAGTATCCGAGCACGAAAGTCTGAAATATTAATGGCTCAAGTGGAACAACTTAAAGCACAGGTATCTCTCTTAAGTGAGGAGAATGAACTCCTTC

Fln Alignment:

Contig5958___MVRGKTEMKRIENTSSRQVTFTKRRNGLLKKAYELSVLCDAEIGLMIFSPRGKLHEFASTSMQKVLERYHGTNDVTQEHDNEDLHRKIANMKERIRILQSTQRNMVGEDLATFSVMELNELEAQADRALHSIRARKSEILMAQVEQLKAQVSLLSEENELL
A9P2G7_________________MVRGKTQMKRIENASRRQVTFSKRRNGLLKKAYELSVLCDAEVGLMIFSSSGKLHEFASPSMQKMVERHHSTHNTTNEQDNKGLNRKITNMEEKIRILELTQRKMSGEDLRTCSMKELNQLEVQIERGLRHIRARKTEILLGQVEELKRKECLLLEENTFL

SNPs (tot: 38)

Position	A %	C %	G %	T %	Probability
168	66		33		0.997452
186		12		87	0.992554
208		12		87	0.992554
237	81			18	0.999994
249	81			18	0.999994
252		81		18	0.999994
257			81	18	0.999994
263		81		18	0.999994
268		9	18	72	0.999994
270		81		18	0.999994
276	20		60	20	0.999999
291	20	80			0.999996
293		80		20	0.999996
303	27		72		1.0
308			36	63	1.0
330		63	36		1.0
333		63		36	1.0
336	63			36	1.0
347		36		63	1.0
350		45		54	1.0
351	72		27		1.0
378		69		30	1.0
402		41		58	1.0
420	45		54		1.0
429	45	54			1.0
447		18	81		0.999994
474		11		88	0.923564
476		55		44	1.0
477		11		88	0.923564
478	11	88			0.923564
479		11		66	0.999999
481	50	12			1.0
489		25	25	50	0.995533
490		50	50		1.0
491		50		50	1.0
493	50	25		25	0.995533
494	25	50		25	0.995533
495		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