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_unigene4761

Length: 413 nt

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

UniGene Fasta (sense)

>biog3_v1.0_unigene4761
CTGGACAAGACATCATTGCGGGCTTTTCCAAATCTGTTGAAGTTTGTTGCAAGCAAGATCTTAGAATATTCCAGAGATAGTGTTGCAGTTCTACGAGTAGACACCTTTGGCAGTCTTGTCTTACAGACCATTTTGAAATTACTAGTGGGAGACAAAGAAGCTGTGGTAAGGGTGATAACTGTCCTTTTGGGTTGTTCTGAAAACAATGTTATGAAAGAAGGCAAGGTGTTAGAGGATGCTACAGTACAGAACGTCTTAGACCTTATGATGGATCCAATTGGCAGCCATTTAATGGAGGTTATTCTGGAGGTGGCACCAGATTCGCTTTACATGGAAATCTTGAATCGTTATTTCGGCATTCCTTGCTTGAATTGCAACTCATGAATCTGGCAACTTTGTGTCCAATCATTGGT

Ace file of the UniGene biog3_v1.0_unigene4761 (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_unigene1159	5/5

Source	Descriptions	Term	Type	Identity
AutoFact	Unassigned protein	-	-	-
FL-Next	Isoform 2 of Pumilio homolog 23 OS=Arabidopsis thaliana GN=APUM23	-	-	41%
Blast2go	pumilio 23	-	-	63%

Source	GOs	Term	Type	Identity
Blast2go	response to glucose stimulus	GO:0009749	Biological Process	63%
Blast2go	primary metabolic process	GO:0044238	Biological Process	63%
Blast2go	response to sucrose stimulus	GO:0009744	Biological Process	63%
Blast2go	macromolecule metabolic process	GO:0043170	Biological Process	63%
Blast2go	auxin homeostasis	GO:0010252	Biological Process	63%
Blast2go	binding	GO:0005488	Molecular Function	63%
Blast2go	catalytic activity	GO:0003824	Molecular Function	63%
Blast2go	nucleolus	GO:0005730	Cellular Component	63%

Source	InterPros	Term	Type	Identity
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3	Ubiquitin-conjugating enzyme, E2	IPR000608	-	-
Sma3	Pumilio RNA-binding repeat	IPR001313	-	-
Sma3	Armadillo-like helical	IPR011989	-	-
Sma3		IPR015706	-	-
Sma3	Ubiquitin-conjugating enzyme/RWD-like	IPR016135	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q9C552-2

Fln msg: Unexpected STOP codon at 3' end. Distance to subject end: 350 aas, your sequence is shorter than subject: 128 - 731

Fln protein: LDKTSLRAFPNLLKFVASKILEYSRDSVAVLRVDTFGSLVLQTILKLLVGDKEAVVRVITVLLGCSENNVMKEGKVLEDATVQNVLDLMMDPIGSHLMEVILEVAPDSLYMEILNRYFGIPCLNCNS*

Protein Length: 129

Fln nts: CTGGACAAGACATCATTGCGGGCTTTTCCAAATCTGTTGAAGTTTGTTGCAAGCAAGATCTTAGAATATTCCAGAGATAGTGTTGCAGTTCTACGAGTAGACACCTTTGGCAGTCTTGTCTTACAGACCATTTTGAAATTACTAGTGGGAGACAAAGAAGCTGTGGTAAGGGTGATAACTGTCCTTTTGGGTTGTTCTGAAAACAATGTTATGAAAGAAGGCAAGGTGTTAGAGGATGCTACAGTACAGAACGTCTTAGACCTTATGATGGATCCAATTGGCAGCCATTTAATGGAGGTTATTCTGGAGGTGGCACCAGATTCGCTTTACATGGAAATCTTGAATCGTTATTTCGGCATTCCTTGCTTGAATTGCAACTCATGAATCTGGCAACTTTGTGTCCAATCATTGGT

Fln Alignment:

Contig4761___RAFPNLLKFVASKILEYSRDSVAVLRVDTFGSLVLQTILKLLVGDKEAVVRVITVLLGCSENNVMKEGKVLEDATVQNVLDLMMDPIGSHLMEVILEVAPDSLYMEILNRYF
Q9C552-2_______________QGFPGMLTYLLSGLLSCSREDMKYLQVDQYSSLVLQTALRLMLKQDEQLLEIIPLILRCNSTNKKVEGFHIETNVAKEILESMKDNSFSHLVEVILEVAPESLYNEMFNKVF

SNPs (tot: 9)

Position	A %	C %	G %	T %	Probability
36	33		66		0.997452
37	33			66	0.997452
40		66		33	0.997452
42	66			33	0.997452
68		75		25	0.996473
195	16	83			0.994512
196	16	83			0.994512
323	20		60	20	0.99255
325	80			20	0.995493

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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