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_unigene4878

Length: 368 nt

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

UniGene Fasta (sense)

>biog3_v1.0_unigene4878
TATTGCAACTCCTGGCCGTCTCATGCATCATCTTGCCGAGGTAGACGAAATGTCTCTGAGAACTGTGGAATATGTGTTTTTGATGAGGCAGACCGTTTATTTGAGATGGGTTTTGCAGACCAATTGCGAAAAATACTTGCCCAGTTGAGCGATAACCGGCAGACTTTGCTTTTTAGTGCGACTCTACCTCGGTTGCTTGCTGAATTTGCAAAGGCAGGGCTTCGGGATCCTCAAATTGTACGACTTGATTTAGAAACTAAGATCAGCCCCGATCTCAAACTCACGTTCTTTACCGTGCGACCCGAAGAGAAATGCGCTGCATTGCTCCACCTGGTGAGAGAGCAGATTGGTTCGGATCAACAGACATT

Ace file of the UniGene biog3_v1.0_unigene4878 (antisense)

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Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene28	4/4

Source	Descriptions	Term	Type	Identity
AutoFact	Dead box ATP-dependent RNA helicase, putative n=1 Tax=Ricinus communis RepID=B9T0X5_RICCO	-	-	65%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	36%
Blast2go	dead-box atp-dependent rna helicase 29-like	-	-	79%

Source	GOs	Term	Type	Identity
Blast2go	RNA binding	GO:0003723	Molecular Function	79%
Blast2go	ATP binding	GO:0005524	Molecular Function	79%
Blast2go	ATP-dependent helicase activity	GO:0008026	Molecular Function	79%
Blast2go	nucleus	GO:0005634	Cellular Component	79%

Source	InterPros	Term	Type	Identity
Sma3	RNA helicase, ATP-dependent, DEAD-box, conserved site	IPR000629	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	DBP10CT	IPR012541	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3	RNA helicase, DEAD-box type, Q motif	IPR014014	-	-
Sma3		IPR014021	-	-
Sma3	Aldehyde dehydrogenase, conserved site	IPR016160	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: C0PQ26

Fln msg: Distance to subject end: 173 aas, your sequence is shorter than subject: 122 - 593

Fln protein: YCNSWPSHASSCRGRRNVSENCGICVFDEADRLFEMGFADQLRKILAQLSDNRQTLLFSATLPRLLAEFAKAGLRDPQIVRLDLETKISPDLKLTFFTVRPEEKCAALLHLVREQIGSDQQT

Protein Length: 123

Fln nts: TATTGCAACTCCTGGCCGTCTCATGCATCATCTTGCCGAGGTAGACGAAATGTCTCTGAGAACTGTGGAATATGTGTTTTTGATGAGGCAGACCGTTTATTTGAGATGGGTTTTGCAGACCAATTGCGAAAAATACTTGCCCAGTTGAGCGATAACCGGCAGACTTTGCTTTTTAGTGCGACTCTACCTCGGTTGCTTGCTGAATTTGCAAAGGCAGGGCTTCGGGATCCTCAAATTGTACGACTTGATTTAGAAACTAAGATCAGCCCCGATCTCAAACTCACGTTCTTTACCGTGCGACCCGAAGAGAAATGCGCTGCATTGCTCCACCTGGTGAGAGAGCAGATTGGTTCGGATCAACAGACATT

Fln Alignment:

Contig4878___VFDEADRLFEMGFADQLRKILAQLSDNRQTLLFSATLPRLLAEFAKAGLRDP-QIVRLDLETKISPDLKLTFFTVRPEEKCAALLHLVRE
C0PQ26_________________VLDEADRMLDMGFEPQIRKIITQIRPDRQTLYWSATWPREVENLARQFLHNPYKVIIGSADLKANHAISQIVEVVSEYEKYPRLIKLLEE

SNPs (tot: 5)

Position	A %	G %	T %	Probability
91	25		75	0.996473
92	25		75	0.996473
95	75		25	0.996473
230	25	75		0.996473
234		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