SustainPineDB

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

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene103454

Length: 423 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene103454
AATGTCTACTGGAAAAGATGGATGACATGACTTCTTATGCAGGTGCAGATGACAATGCACAATCAACTCAAGGGACTAATGCAAAAAGATCTCGCAAAAGAAAATCAACTGCTGTTCGTAATGCGGCCCGCAAGCAAGCAAGAATAGCAGTTGAGGCAATGCTTGTTAGTTGCAAGGAAGAGAAAACTGAGGAAGGTTCTGATAATTTAACTGAGGAAGAGAGGCTTTGGAAAGAACAGATGGAACTCGTACCCTTATTAATTGGAGGAAGGCTCAGATCTTATCAAATGAAAGGGGTGAAGTGGATGATTTCACTATGGCAAAATGGTCTTAATGGAATTCTTGCTGATCAAATGGGTCTTGGAAAGACTATTCAGACTATTGGATTCCTTGCACATCTGAAGGGAATGGGAATACATGGAC

Ace file of the UniGene sp_v3.0_unigene103454 (antisense)

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	ISWI chromatin remodeling complex ATPase ISW1, putative n=1 Tax=Ricinus communis RepID=B9S6I7_RICCO	-	-	3.0e-36	62%
FL-Next	sp=ATP-dependent DNA helicase DDM1; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	58%
Sma3	SWI2/SNF2-like protein	-	-	6.4e-12	-

Source	Gene names
Sma3	At3g57300; CHR1530; CHR3504; CHR904; CHR905; DDM1; DDM1b; F28O9.150; GSVIVT00019937001; GSVIVT00024954001; INO80; LOC_Os03g51230; MICPUCDRAFT_54122; MICPUN_58978; OJ1607_F09.9; OSTLU_37662; Os03g0722400; Os05g0144300; Os09g0442700; OsDDM1a; OsDDM1b; OsI_1

Source	GOs	Term	Type	Identity
Sma3	nucleosome	GO:0000786	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	helicase activity	GO:0004386	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-

Source	InterPros	Term	Type	Identity
Sma3	SNF2-related	IPR000330	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3	DNA ligase, ATP-dependent, conserved site	IPR016059	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT5G66750.1	DDM1, CHR01, CHR1, CHA1, SOM4, SOM1, ATDDM1 chromatin remodeling 1 chr5:26649050-26652869 FORWARD LENGTH=764	9.99995e-41	58%
RefSeq	Arabidopsis thaliana	NP_201476.1	chromatin remodeling 1 [Arabidopsis thaliana]	2.0e-40	58%
RefSeq	Populus trichocarpa	XP_002325643.1	chromatin remodeling complex subunit, partial [Populus trichocarpa]	7.00649e-44	61%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q9XFH4

Fln msg: Distance to subject end: 513 aas, your sequence is shorter than subject: 140 - 764

Fln protein: CLLEKMDDMTSYAGADDNAQSTQGTNAKRSRKRKSTAVRNAARKQARIAVEAMLVSCKEEKTEEGSDNLTEEERLWKEQMELVPLLIGGRLRSYQMKGVKWMISLWQNGLNGILADQMGLGKTIQTIGFLAHLKGMGIHG

Protein Length: 141

Fln nts: AATGTCTACTGGAAAAGATGGATGACATGACTTCTTATGCAGGTGCAGATGACAATGCACAATCAACTCAAGGGACTAATGCAAAAAGATCTCGCAAAAGAAAATCAACTGCTGTTCGTAATGCGGCCCGCAAGCAAGCAAGAATAGCAGTTGAGGCAATGCTTGTTAGTTGCAAGGAAGAGAAAACTGAGGAAGGTTCTGATAATTTAACTGAGGAAGAGAGGCTTTGGAAAGAACAGATGGAACTCGTACCCTTATTAATTGGAGGAAGGCTCAGATCTTATCAAATGAAAGGGGTGAAGTGGATGATTTCACTATGGCAAAATGGTCTTAATGGAATTCTTGCTGATCAAATGGGTCTTGGAAAGACTATTCAGACTATTGGATTCCTTGCACATCTGAAGGGAATGGGAATACATGGAC

Fln Alignment:

AllPine_a_c33779___LLEKMDDMTSYAGADDNAQSTQGTNAKRSRKRKSTAVRNAARKQARIAVEAMLVSCKEEKTEEGSDNLTEEERLWKEQMELVPLLIGGRLRSYQMKGVKWMISLWQNGLNGILADQMGLGKTIQTIGFLAHLKGMGIHG
Q9XFH4________________LLEKMEDIT-INGIESESQKAEPEKTGRGRKRKAASQYNNTK--AKRAVAAMISRSKEDGETINSD-LTEEETVIKLQNELCPLLTGGQLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIGFLSHLKGNGLDG

SSRs (tot: 1)

Start position	End position	Sequence	Length
282	294	CTTG CTTG CTTG C	13

Back

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