SustainPineDB

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

Assembly Name: uagpf v2.0

UniGene Name: uagpf_v2_unigene6079

Length: 518 nt

UniGene Fasta

>uagpf_v2_unigene6079
CGTCGTGACCTTGGCTGTCACTCAAAGTTTGTCCGTTTGGATGGGTCTATGCCTCCAAAGAAGCGAGCTGCATCCATTACTGCATTCATGTCAAACAAACCAAGCAGCCCAACCATCCTCTTGGCAAGTTTGAAAGCTGCAGGAGTAGGGATAAATCTAACTGCTGCTTCTGATGTCTACATGTTTGACCCTTGGTGGAATCCTGCCGTGGAAGATCAAGCAATGGATCGAATACACAGAATTGGGCAGACAAGGTCTGTGAGAGTGCTCAGGTTAGTTGTAAAGGACAGCATTGAGGAGCGCATATTAGAGATGCAAGATGGGAAACGGAAGTTAGCTAGCTCTGCATTCAAAGACAAGTCTGACAAGGAGCAACGCAAAATGCGTGTGGAAGATGTACAGCGTCTTATGCGGTTATCATAGATTGAATTCGTGTAGTGTAATTCTACACTTCGTTTTTGTAGGTGTCAAGATCGTGACTGCCTTTTGGCCTGAATAGGGTAATTCATTGTCCAGAT

Ace file of the UniGene uagpf_v2_unigene6079

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

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene5056	13/18

Source	Descriptions	Term	Type	Identity
AutoFact	Chromatin remodeling complex subunit (Fragment) n=1 Tax=Populus trichocarpa RepID=B9H8S6_POPTR	-	-	54%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	47%
Blast2go	helicase-like transcription factor	-	-	69%

Source	GOs	Term	Type	Identity
Blast2go	ATP binding	GO:0005524	Molecular Function	69%
Blast2go	helicase activity	GO:0004386	Molecular Function	69%
Blast2go	DNA binding	GO:0003677	Molecular Function	69%
Blast2go	zinc ion binding	GO:0008270	Molecular Function	69%

Source	InterPros	Term	Type	Identity
Sma3	SNF2-related	IPR000330	-	-
Sma3	von Willebrand factor, type C	IPR001007	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Zinc finger, RING-type	IPR001841	-	-
Sma3	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site	IPR002464	-	-
Sma3		IPR004348	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3	HIP116, Rad5p N-terminal	IPR014905	-	-
Sma3	Zinc finger, RING-type, conserved site	IPR017907	-	-
Sma3	Zinc finger, C3HC4 RING-type	IPR018957	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: D5AD70

Fln msg: Unexpected STOP codon at 3' end. Distance to subject end: 47 aas, your sequence is shorter than subject: 141 - 377

Fln protein: RRDLGCHSKFVRLDGSMPPKKRAASITAFMSNKPSSPTILLASLKAAGVGINLTAASDVYMFDPWWNPAVEDQAMDRIHRIGQTRSVRVLRLVVKDSIEERILEMQDGKRKLASSAFKDKSDKEQRKMRVEDVQRLMRLS*

Protein Length: 142

Fln nts: CGTCGTGACCTTGGCTGTCACTCAAAGTTTGTCCGTTTGGATGGGTCTATGCCTCCAAAGAAGCGAGCTGCATCCATTACTGCATTCATGTCAAACAAACCAAGCAGCCCAACCATCCTCTTGGCAAGTTTGAAAGCTGCAGGAGTAGGGATAAATCTAACTGCTGCTTCTGATGTCTACATGTTTGACCCTTGGTGGAATCCTGCCGTGGAAGATCAAGCAATGGATCGAATACACAGAATTGGGCAGACAAGGTCTGTGAGAGTGCTCAGGTTAGTTGTAAAGGACAGCATTGAGGAGCGCATATTAGAGATGCAAGATGGGAAACGGAAGTTAGCTAGCTCTGCATTCAAAGACAAGTCTGACAAGGAGCAACGCAAAATGCGTGTGGAAGATGTACAGCGTCTTATGCGGTTATCATAGATTGAATTCGTGTAGTGTAATTCTACACTTCGTTTTTGTAGGTGTCAAGATCGTGACTGCCTTTTGGCCTGAATAGGGTAATTCATTGTCCAGAT

Fln Alignment:

Contig6079___RLDGSMPPKKRAASITAFMSNKPSSPT-ILLASLKAAGVGINLTAASDVYMFDPWWNPAVEDQAMDRIHRIGQTRSVRVLRLVVKDSIEERILEMQDGKRKL
D5AD70_______________RIDGSVKLHDRQRQIKDF--NDPNSNLHIFLLSTRAGGLGINLTAADTCIIYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLCTSHSAECRMLKVAFDKLKL

SNPs (tot: 4)

Position	A %	C %	G %	T %	Probability
174		11		88	0.923564
178	11			88	0.923564
179	88	11			0.923564
331	11		77		0.968132

Back

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