SustainPineDB

All assemblies
Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene20558

Length: 353 nt

Origin of reads: Uagpf v2

UniGene Fasta

>sp_v2.0_unigene20558
CGTCGTGACCTGGCTGTCACTCAATTCATGGGGAGAGAGACTGGATCTTATCAGAATTTAAGGCTGGAAAGAGCCCTATTATGACTGCTACCGATGTTGCTGCACGAGGCTTGGGCCGTCAAATGATAGAGCATACAAAGAGGCTAGTTGAAGAAAGGTTCACAATAGTTGGTGGTTACCAATACAATGCTGAGGTAGGCTATTATTTAGCAACTAAAGGCATTTGTAACCTTTGAACTGGATCAGTAATGCCAGGAAGTACACTTGTTGTATTGGTGATAGTCCAAGTTCTTGAGATCATAATGGGTGATCTGATCCTAACCAAGATTTCTACTGTAAAGCTTGATATTATA

Ace file of the UniGene sp_v2.0_unigene20558

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:

Go to the Tablet ACE viewer Web

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Dead box ATP-dependent RNA helicase, putative n=1 Tax=Ricinus communis RepID=B9RGR4_RICCO	-	-	3.0e-08	78%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	83%
Blast2go	dead box atp-dependent rna	-	-	1.93707e-09	85%

Source	InterPros	Term	Type	Identity
Sma3	RNA helicase, ATP-dependent, DEAD-box, conserved site	IPR000629	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	DNA-directed DNA polymerase, family B, pol2	IPR004578	-	-
Sma3	DNA-directed DNA polymerase, family B, exonuclease domain	IPR006133	-	-
Sma3	DNA-directed DNA polymerase, family B, multifunctional domain	IPR006134	-	-
Sma3	DNA-directed DNA polymerase, family B	IPR006172	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3	RNA helicase, DEAD-box type, Q motif	IPR014014	-	-
Sma3		IPR014021	-	-
Sma3	DNA-directed DNA polymerase, family B, conserved site	IPR017964	-	-
Sma3		IPR017966	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: B8LKZ7

Fln msg: Unexpected stop codon in the beginning of your sequence, Unexpected STOP codon at 3' end. Distance to subject end: 16 aas, your sequence is shorter than subject: 78 - 504

Fln protein: S*PGCHSIHGERDWILSEFKAGKSPIMTATDVAARGLGRQMIEHTKRLVEERFTIVGGYQYNAEVGYYLATKGICNL*

Protein Length: 79

Fln nts: CGTCGTGACCTGGCTGTCACTCAATTCATGGGGAGAGAGACTGGATCTTATCAGAATTTAAGGCTGGAAAGAGCCCTATTATGACTGCTACCGATGTTGCTGCACGAGGCTTGGGCCGTCAAATGATAGAGCATACAAAGAGGCTAGTTGAAGAAAGGTTCACAATAGTTGGTGGTTACCAATACAATGCTGAGGTAGGCTATTATTTAGCAACTAAAGGCATTTGTAACCTTTGAACTGGATCAGTAATGCCAGGAAGTACACTTGTTGTATTGGTGATAGTCCAAGTTCTTGAGATCATAATGGGTGATCTGATCCTAACCAAGATTTCTACTGTAAAGCTTGATATTATA

Fln Alignment:

Contig20558___SIHG-----ERDWILSEFKAGKSPIMTATDVAARGL
B8LKZ7_______________SIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGL

SNPs (tot: 12)

Position	A %	C %	G %	T %	Probability
94	66			33	0.997452
95		33		66	0.997452
98			33	66	0.997452
99	33		66		0.997452
105		66	33		0.997452
106	66	33			0.997452
107		66		33	0.997452
109	66			33	0.997452
110		33	66		0.997452
111	33		66		0.997452
114		33		66	0.997452
115	33		66		0.997452

Back

Biología Molecular y Biotecnología de Plantas, Facultad de Ciencias y Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071 Málaga, Spain