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_unigene60829

Length: 433 nt

Origin of reads: Biogeco2 v2 Uagpf v2 Uma v2

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

UniGene Fasta (sense)

>sp_v2.0_unigene60829
CGTCGTGACCTTGGCTGTCACTCAAACTTTGGAGCGTCGTGACCTTGGCTGTCACTCATGTTAGGTTTGGATTCCCTGACTGATTCAGAGCTACAGGCGATGATGCAGGAGGGGGATTTGGACGGCGACGGGGCTCTGAATGAACATGAATTCTGCGTTCTGATGGTGAGATTGAGCCCTTCGTTGATGGATGAGGCCTATAAATGGCTGAACAACGCGCTGGAAAATGATTTGGAAGAATTCCCAAATGAGAGATAGTACATGTATTTTCAATTCCGTGTAGTGTTGAAAATGAATTGAGGCATTTATGATGTACAGGGATAAATTTTATGATGTCAGAGACTGGCAGGGTATCCATCAAATTTAGTCTATATTTAAGGTGTATTTATGTTGGTTTTAATTGAATTATGTATAAAAATTGTGTAGAAATTTA

Ace file of the UniGene sp_v2.0_unigene60829 (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

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Calcium binding protein with EF-hand motif (Fragment) n=4 Tax=Pseudotsuga RepID=C6F9S2_PSEMZ	-	-	2.0e-20	77%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	80%
Blast2go	calcium binding protein with ef-hand motif	-	-	8.86432e-29	81%

Source	InterPros	Term	Type	Identity
Sma3	EF-hand-like domain	IPR011992	-	-
Sma3	EF-Hand 1, calcium-binding site	IPR018247	-	-
Sma3	EF-hand	IPR018248	-	-
Sma3	EF-HAND 2	IPR018249	-	-

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: coniferopsida.fasta

Fln subject: A9NQ27

Fln msg: Unexpected stop codon in the beginning of your sequence, your sequence is shorter than subject: 86 - 115

Fln protein: RRDLGCHSNFGAS*PWLSLMLGLDSLTDSELQAMMQEGDLDGDGALNEHEFCVLMVRLSPSLMDEAYKWLNNALENDLEEFPNER*

Protein Length: 87

Fln nts: CGTCGTGACCTTGGCTGTCACTCAAACTTTGGAGCGTCGTGACCTTGGCTGTCACTCATGTTAGGTTTGGATTCCCTGACTGATTCAGAGCTACAGGCGATGATGCAGGAGGGGGATTTGGACGGCGACGGGGCTCTGAATGAACATGAATTCTGCGTTCTGATGGTGAGATTGAGCCCTTCGTTGATGGATGAGGCCTATAAATGGCTGAACAACGCGCTGGAAAATGATTTGGAAGAATTCCCAAATGAGAGATAG___TACATGTATTTTCAATTCCGTGTAGTGTTGAAAATGAATTGAGGCATTTATGATGTACAGGGATAAATTTTATGATGTCAGAGACTGGCAGGGTATCCATCAAATTTAGTCTATATTTAAGGTGTATTTATGTTGGTTTTAATTGAATTATGTATAAAAATTGTGTAGAAATTTA

Fln Alignment:

AllPineV4_rep_c65770___MLGLDSLTDSELQAMMQEGDLDGDGALNEHEFCVLMVRLSPSLMDEAYKWLNNALENDLEEFPNER
A9NQ27_______________LLGLDSLTDSELRAMMGEGDLDGDGALNEHEFCVLMIRLSPSFMAEAEKWLNKALVNDLEETMTEK

SNPs (tot: 36)

Position	A %	C %	G %	T %	Probability
303		87		12	0.992555
304		87	12		0.992555
305	12	87			0.992555
310	12	87			0.992554
312	12		87		0.992554
313			12	87	0.992554
318	85		14		0.993533
319			14	85	0.993533
320		57		28	1.0
321		85	14		0.993533
322	28	71			1.0
323		85	14		0.993533
324		71	14	14	0.98434
325	14		14	71	0.984337
326	14	85			0.993533
327		85	14		0.993533
328	16			83	0.994512
333	16			83	0.994512
334		83	16		0.994512
335	83		16		0.994512
338	16		83		0.994512
341	16	83			0.994512
342		16		66	0.988813
360		80	20		0.995493
363			80	20	0.995493
368			20	80	0.995493
374		80	20		0.995494
375		80	20		0.995493
377	80	20			0.995493
384		33	33		0.997753
385		33	66		0.997452
395	66			33	0.997476
396		33	66		0.997476
397			66	33	0.997476
401	33	66			0.997476
405			66	33	0.997476

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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