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_unigene13104

Length: 534 nt

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

UniGene Fasta (sense)

>biog3_v1.0_unigene13104
TGTGCGCATTACTGATCAGAAGCTTCGTGTATGCGACATTTGTGGAGCTTTCTTGAGNGTTTATGACAGTGATCGTCGGTTGGCTGATCATTTTGGAGGGAAACTTCATTTAGGGTATATGCAAATCCGAGAGAAGCTGGTTGATCTGCAGGAAGAAAGAAATAAACTCAGAAGACAGGATCGATCTGAAGACGATGGAAGGTTGAGAGATCGGTACTGAAATGATACATGATCAGAACAGAACATTGTTGAGGCCGTTTTCTCACGCCCCAACCAAATCTTATGTAATTTTGAACTTCGTTTAGAAAATACTTGTAGCTTCAAATTTATCTTACTCATGGATCAAGGACTTTATATGTTTATCATCCAGAGACAGATATGCAGAACCAAAGGGAGTCATTATGCTGCAAATATTATGTTGGTGTTGTATATGAATATATTGCTCTAGCTTTAGTGTCACAATTAACTATTCATCAAAAGTTTAGAGGTGGTAAAGGTTGATTGGCATTGCTAAATTGCGGTCTTAGAATGTCA

Ace file of the UniGene biog3_v1.0_unigene13104 (antisense)

If you push the Download ace button, you will download an ace file of this UniGene.

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Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene27548	2/6
SustainPine v2.0	sp_v2.0_unigene28990	2/6
SustainPine v2.0	sp_v2.0_unigene70087	2/6

Source	Descriptions	Term	Type	Identity
AutoFact	sarcoplasmic reticulum protein-like protein [Oryza sativa Japonica Group] gb\|AAS07364.1\| sarcoplasmic reticulum protein (with alternative splicing) [Oryza sativa Japonica Group] gb\|ABF99835.1\| RNA-binding protein Luc7-like 2, putative, expressed [Oryza sa	-	-	60%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	84%
Blast2go	rna-binding protein luc7-like expressed	-	-	83%

Source	InterPros	Term	Type	Identity
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	LUC7-related	IPR004882	-	-
Sma3	Pre-mRNA-splicing factor 38	IPR005037	-	-
Sma3	U2 snRNP auxilliary factor, large subunit, splicing factor	IPR006529	-	-
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-
Sma3	Domain of unknown function DUF1777	IPR013957	-	-

Full-Lengther Next Prediction

Fln status: Putative C-terminus

Fln database: coniferopsida.fasta

Fln subject: D5ABV1

Fln msg: query STOP codon too far from subject stop. Distance to subject end: 88 aas, putative chimeric sequence, your sequence is shorter than subject: 73 - 422

Fln protein: VRITDQKLRVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIREKLVDLQEERNKLRRQDRSEDDGRLRDRY*

Protein Length: 74

Fln nts: TGTGCGCATTACTGATCAGAAGCTTCGTGTATGCGACATTTGTGGAGCTTTCTTGAGtGTTTATGACAGTGATCGTCGGTTGGCTGATCATTTTGGAGGGAAACTTCATTTAGGGTATATGCAAATCCGAGAGAAGCTGGTTGATCTGCAGGAAGAAAGAAATAAACTCAGAAGACAGGATCGATCTGAAGACGATGGAAGGTTGAGAGATCGGTACTGA___AATGATACATGATCAGAACAGAACATTGTTGAGGCCGTTTTCTCACGCCCCAACCAAATCTTATGTAATTTTGAACTTCGTTTAGAAAATACTTGTAGCTTCAAATTTATCTTACTCATGGATCAAGGACTTTATATGTTTATCATCCAGAGACAGATATGCAGAACCAAAGGGAGTCATTATGCTGCAAATATTATGTTGGTGTTGTATATGAATATATTGCTCTAGCTTTAGTGTCACAATTAACTATTCATCAAAAGTTTAGAGGTGGTAAAGGTTGATTGGCATTGCTAAATTGCGGTCTTAGAATGTCA

Fln Alignment:

biogeco3_mira_c639___VRITDQKLRVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIREKLVDLQEERNKLRRQDRSEDDGRLRDR
D5ABV1__________________VRITDQKLRVCDICGAFLSIYDSDRRLADHFGGKLHLGYMQIRQKLTDLREERNKLRKLDRVADVERPRDR

SNPs (tot: 1)

Position	A %	C %	G %	T %	Probability
370			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