SustainPineDB

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

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene117307

Length: 227 nt

UniGene Fasta

>sp_v3.0_unigene117307
CGTCGTGACCTTGGCTATCACTCACTGCGGACAAACTCTCAAAGATGGAAACTACGGGCATTACACTTCCTCCAGGCTTGAGGATGGTTTCAGTGTCTGGACAGGATTTACATGGATATTACAAAATATTTGAGGCATTTGGCCTTGTGCAAAGGAAGGAAGGAAAGGGGATTGCCAGGTGGTGTTATCCTCGTGGTCTAGACAATCTTGTATTTGATGTGGTAGCT

Ace file of the UniGene sp_v3.0_unigene117307

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	Chromatin remodeling complex subunit n=1 Tax=Populus trichocarpa RepID=B9GWX1_POPTR	-	-	1.0e-11	54%
FL-Next	sp=F-box protein At3g54460; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	48%

Source	Gene names
Sma3	GSVIVT00030933001; VITISV_032626;

Source	GOs	Term	Type	Identity
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	helicase activity	GO:0004386	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-

Source	InterPros	Term	Type	Identity
Sma3	SNF2-related	IPR000330	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	F-box domain, cyclin-like	IPR001810	-	-
Sma3	Zinc finger, RING-type	IPR001841	-	-
Sma3	Zinc finger, CW-type	IPR011124	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3	Zinc finger, RING-type, conserved site	IPR017907	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT3G54460.1	SNF2 domain-containing protein / helicase domain-containing protein / F-box family protein chr3:20162050-20167186 REVERSE LENGTH=1378	3.0e-11	48%
RefSeq	Arabidopsis thaliana	NP_680129.1	F-box protein [Arabidopsis thaliana]	3.0e-11	48%
RefSeq	Populus trichocarpa	XP_002303924.1	chromatin remodeling complex subunit [Populus trichocarpa]	1.0e-15	54%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q9M1I1

Fln msg: Unexpected stop codon in the beginning of your sequence, Distance to subject end: 642 aas, your sequence is shorter than subject: 75 - 1378

Fln protein: S*PWLSLTADKLSKMETTGITLPPGLRMVSVSGQDLHGYYKIFEAFGLVQRKEGKGIARWCYPRGLDNLVFDVVA

Protein Length: 76

Fln nts: CGTCGTGACCTTGGCTATCACTCACTGCGGACAAACTCTCAAAGATGGAAACTACGGGCATTACACTTCCTCCAGGCTTGAGGATGGTTTCAGTGTCTGGACAGGATTTACATGGATATTACAAAATATTTGAGGCATTTGGCCTTGTGCAAAGGAAGGAAGGAAAGGGGATTGCCAGGTGGTGTTATCCTCGTGGTCTAGACAATCTTGTATTTGATGTGGTAGCT

Fln Alignment:

AllPine_a_c52326___WLS-LTADKLSKMETTGITLPP-GLRMVSVSGQDLHGYYKIFEAFGLVQRKEGKGIARWCYPRGLDNLVFDVVA
Q9M1I1________________WLAKLPLEKLSQMETVGLPGPVLGLKL------DALGFQRIFRAFGLKSRVE-KGVTKWFYPKFLENLVFDVPA

SSRs (tot: 1)

Start position	End position	Sequence	Length
152	165	AAGG AAGG AAGG AA	14

Back

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