SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: biogeco3 v1.0

UniGene Name: biog3_v1.0_unigene2274

Length: 558 nt

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

UniGene Fasta (sense)

>biog3_v1.0_unigene2274
AATGTCATCAATGGAGGAGGTATGTGTACACGTCCCGAGTTCCCCACATATTATTCAATTCCCGAATCCAATCCCCGACCCCAGGTTGAACTTGGTTCACATTTCTGCGGTAGGAGGTCCACTAGATTTGTGTCAAGAATGCAAGAAGGCAATTGAATGCTTTGAGTGGGCAGTTTCTCGTGAAAGACGAAGAAATGAGCAGGGAAACTGTTGAGCATTCTGATTAGCATTTTGGGTCGGCATGGCAGAGTGGGACTTGCAAAGCAAGCCTTTGATAAAGCGAACGCAGAAGGCTATGGCAACACTGTTTACGCCTTCTCTGCTCTCATCAGTGCTTATGGCCGCAGCGGTATGTGCAAGGAAGCTATTGGTATCTTTGAGTCAATGAAGAGGTCTGGTTGTAAGCCAAACCTTGTTTCTTATAATGCTGTCATTGATGCTTTTGCTAAGGGGAGTGTGGATTTCAAACAAGCATCTGAAGCTTTTGATGAAATGATCCGGGAAGGAGTTCAACCTGACCGAATTACATTCAATTCTCTGATCTCTGTCTGTGTTCGA

Ace file of the UniGene biog3_v1.0_unigene2274 (antisense)

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Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene36324	3/4

Source	Descriptions	Term	Type	Identity
AutoFact	genomes uncoupled 1 protein [Arabidopsis thaliana] sp\|Q9SIC9.1\|PP178_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At2g31400, chloroplastic; Flags: Precursor gb\|AAD26479.1\| unknown protein [Arabidopsis thaliana] gb\|AEC08542.1\| genomes un	-	-	58%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	26%
Blast2go	pentatricopeptide repeat-containing protein	-	-	66%

Source	GOs	Term	Type	Identity
Blast2go	mitochondria-nucleus signaling pathway	GO:0031930	Biological Process	66%
Blast2go	chloroplast-nucleus signaling pathway	GO:0010019	Biological Process	66%
Blast2go	transcription from plastid promoter	GO:0042793	Biological Process	66%
Blast2go	positive regulation of transcription, DNA-dependent	GO:0045893	Biological Process	66%
Blast2go	DNA binding	GO:0003677	Molecular Function	66%
Blast2go	plastid chromosome	GO:0009508	Cellular Component	66%
Blast2go	chloroplast	GO:0009507	Cellular Component	66%

Source	InterPros	Term	Type	Identity
Sma3	DNA methylase, N-6 adenine-specific, conserved site	IPR002052	-	-
Sma3	Smr protein/MutS2 C-terminal	IPR002625	-	-
Sma3	Pentatricopeptide repeat	IPR002885	-	-
Sma3	Tetratricopeptide-like helical	IPR011990	-	-

Full-Lengther Next Prediction

Fln status: Putative N-terminus

Fln database: coniferopsida.fasta

Fln subject: A9NXP3

Fln msg: Distance to subject end: 116 aas, Unexpected STOP codon in 5 prime region, your sequence is shorter than subject: 120 - 278

Fln protein: AGKLLSILISILGRHGRVGLAKQAFDKANAEGYGNTVYAFSALISAYGRSGMCKEAIGIFESMKRSGCKPNLVSYNAVIDAFAKGSVDFKQASEAFDEMIREGVQPDRITFNSLISVCVR

Protein Length: 121

Fln nts: AATGTCATCAATGGAGGAGGTATGTGTACACGTCCCGAGTTCCCCACATATTATTCAATTCCCGAATCCAATCCCCGACCCCAGGTTGAACTTGGTTCACATTTCTGCGGTAGGAGGTCCACTAGATTTGTGTCAAGAATGCAAGAAGGCAATTGAATGCTTTGAGTGGGCAGTTTCTCGTGAAAGACGAAGAA_-_ATGAGCAGGGAAACTGTTGAGCATTCTGATTAGCATTTTGGGTCGGCATGGCAGAGTGGGACTTGCAAAGCAAGCCTTTGATAAAGCGAACGCAGAAGGCTATGGCAACACTGTTTACGCCTTCTCTGCTCTCATCAGTGCTTATGGCCGCAGCGGTATGTGCAAGGAAGCTATTGGTATCTTTGAGTCAATGAAGAGGTCTGGTTGTAAGCCAAACCTTGTTTCTTATAATGCTGTCATTGATGCTTTTGCTAAGGGGAGTGTGGATTTCAAACAAGCATCTGAAGCTTTTGATGAAATGATCCGGGAAGGAGTTCAACCTGACCGAATTACATTCAATTCTCTGATCTCTGTCTGTGTTCGA

Fln Alignment:

Contig2274___HGRVGLAKQA---FDKANAEGYGNTVYAFSALISAYGRSGMCKEAIGIFESMKRSGCKPNLVSYNAVIDAFAKGSVDFKQASEAFDEMIREGVQPDRITFNSLI
A9NXP3_________________YGKAGFFQDAAKLFSRMQQEGIKPGKVTYNTMLDAYARSGLHTRAEEVFNDMQDEGYSPDSYTYLSLICAYT-NCQRFQEAEDLLKRMHRQGLAPGLVHFNHLV

SNPs (tot: 7)

Position	A %	C %	G %	T %	Probability
141		20	80		0.995493
142	80			20	0.995493
143	80			20	0.995493
144	80			20	0.995493
264		25		75	0.996473
266			75	25	0.996473
267		75		25	0.996473

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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