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_unigene40434

Length: 337 nt

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

UniGene Fasta (sense)

>sp_v2.0_unigene40434
TCGTCGTGGAGACAAGTCACATCCACAGGCTGAGGAAATTTATGCAATGCTGCGGAGCCTTGCTGGGAAGATGAAGGACGTTGGCTATGTGCCTGCTACAAAATTTGTGCTACAAAACGTGGAGGAGTCTGAGAAGGAAAATATCCTGTGTGGTCACAGTGAAAGGCTAGCCCTTGCGTTTGGGCTAATTAACACAGGCCCTGGGTTATCCATCAGGATTACCAAGAACATCCGTGTTTGTGGTGATTGTCACAGTGCAATCAAGGCCATTTCCACTATTGTTGGACGTGAGATTATTGTGAGAGATTCACAACGGTTCCATCATTTTGGAGATGGA

Ace file of the UniGene sp_v2.0_unigene40434 (antisense)

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	NXPV_089_C07_F NXPV (Nsf Xylem Planings wood Vertical) Pinus taeda cDNA clone NXPV_089_C07 5' similar to Arabidopsis thaliana sequence At3g57430 putative protein see http://mips.gsf.de/proj/thal/db/index.html, mRNA sequence.	-	-	73%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	70%
Blast2go	pentatricopeptide repeat protein	-	-	78%

Source	InterPros	Term	Type	Identity
Sma3	Peptidase S8/S53, subtilisin/kexin/sedolisin	IPR000209	-	-
Sma3	Protein kinase, catalytic domain	IPR000719	-	-
Sma3	Legume lectin domain	IPR001220	-	-
Sma3	C-5 cytosine methyltransferase	IPR001525	-	-
Sma3	Pentatricopeptide repeat	IPR002885	-	-
Sma3	Immunoglobulin/major histocompatibility complex, conserved site	IPR003006	-	-
Sma3	Domain of unknown function DUF221	IPR003864	-	-
Sma3	Uncharacterised protein family Cys-rich	IPR006461	-	-
Sma3	Serine/threonine-protein kinase, active site	IPR008271	-	-
Sma3	Tetratricopeptide-like helical	IPR011990	-	-
Sma3	Methyltransferase type 11	IPR013216	-	-
Sma3	Protein kinase, ATP binding site	IPR017441	-	-
Sma3		IPR017442	-	-
Sma3	Asp/Glu racemase, active site	IPR018187	-	-
Sma3	EF-Hand 1, calcium-binding site	IPR018247	-	-
Sma3	WD40 repeat, conserved site	IPR019775	-	-

Full-Lengther Next Prediction

Fln status: Putative C-terminus

Fln database: coniferopsida.fasta

Fln subject: D5ADG9

Fln msg: STOP codon was not found. Distance to subject end: 8 aas, your sequence is shorter than subject: 112 - 312

Fln protein: RRGDKSHPQAEEIYAMLRSLAGKMKDVGYVPATKFVLQNVEESEKENILCGHSERLALAFGLINTGPGLSIRITKNIRVCGDCHSAIKAISTIVGREIIVRDSQRFHHFGDG

Protein Length: 113

Fln nts: TCGTCGTGGAGACAAGTCACATCCACAGGCTGAGGAAATTTATGCAATGCTGCGGAGCCTTGCTGGGAAGATGAAGGACGTTGGCTATGTGCCTGCTACAAAATTTGTGCTACAAAACGTGGAGGAGTCTGAGAAGGAAAATATCCTGTGTGGTCACAGTGAAAGGCTAGCCCTTGCGTTTGGGCTAATTAACACAGGCCCTGGGTTATCCATCAGGATTACCAAGAACATCCGTGTTTGTGGTGATTGTCACAGTGCAATCAAGGCCATTTCCACTATTGTTGGACGTGAGATTATTGTGAGAGATTCACAACGGTTCCATCATTTTGGAGATGGA

Fln Alignment:

AllPineV4_c37120___GDKSHPQAEEIYAMLRSLAGKMKDVGYVPATKFVLQNVEESEKENILCGHSERLALAFGLINTGPGLSIRITKNIRVCGDCHSAIKAISTIVGREIIVRDSQRFHHFGDG
D5ADG9_______________GDISHPQTEAIYAMLETLARQMEAVGYVPCTDFVLHDVEEEIKENMLFAHSEKLAIAFGLISTRSGTSIRITKNLRVCGDCHSATKFISKIVKREIIMRDLNRFHHFKDG

SNPs (tot: 11)

Position	A %	C %	G %	T %	Probability
141		66		33	0.997452
282		25		75	0.996474
308	75			25	0.996473
310	50	50			1.0
312	25			50	0.995533
313			75	25	0.996473
319		33	66		0.997452
320	33			66	0.997453
324	33			66	0.997467
325	33			66	0.997464
328		66	33		0.997457

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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