SustainPineDB

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

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene41393

Length: 370 nt

Origin of reads: Uagpf v2

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

UniGene Fasta (sense)

>sp_v2.0_unigene41393
TTTAGATGACATCTTAATTTTCAGCAAGTCTAGAGAAGATCATGTCATGCATGTTAGAAAAGTACTTGATGTTTTGAAGAAGAATCAGTTATTTCTTAAAATGTCAAAGTGTGAATTTGGAAAGACTTCTTTGGTTTATTTGGGACACATAGTAGGAGGAGGTGCTTTGAGAATTGATCCTGCTAAGATTGAGGCTATTGTAAAGTGGCCTACTCCCAAATCCATAACAGAGGTAAGAAGTTTTTTGGGTGCAGCTCAATATTGGAGGAAGTTTATCTCTAACTTCTCTTCTATAGCAGCTCCTATGCATGCAGTGACAAGTGTGAAGCATGCTTTCCAATGGGGATGAGTGACAGCCAAGGTCACGACG

Ace file of the UniGene sp_v2.0_unigene41393 (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	Retrotransposon protein, putative, Ty3-gypsy subclass n=1 Tax=Oryza sativa Japonica Group RepID=Q2QTW2_ORYSJ	-	-	6.0e-30	50%
FL-Next	sp=Uncharacterized mitochondrial protein AtMg00860; Arabidopsis thaliana (Mouse-ear cress). Mitochondrion.	-	-	0.0	39%
Blast2go	retrotransposon ty3-gypsy subclass	-	-	1.57905e-34	70%

Source	GOs	Term	Type	e value	Identity
Blast2go	binding	GO:0005488	Molecular Function	1.57905e-34	70%

Source	InterPros	Term	Type	Identity
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3	Chromo domain/shadow	IPR000953	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Peptidase aspartic, active site	IPR001969	-	-
Sma3	FMRFamide-related peptide-like	IPR002544	-	-
Sma3	ABC transporter-like	IPR003439	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	Retrotransposon gag protein	IPR005162	-	-
Sma3	Domain of unknown function DUF659	IPR007021	-	-
Sma3	HAT dimerisation	IPR008906	-	-
Sma3		IPR013084	-	-
Sma3	Retroviral aspartyl protease	IPR013242	-	-
Sma3	Zinc finger, H2C2-type, histone UAS binding	IPR015416	-	-

Full-Lengther Next Prediction

Fln status: Putative N-terminus

Fln database: sp_plants

Fln subject: P92523

Fln msg: Unexpected STOP codon at 3' end. Distance to subject end: 48 aas, No stop codon before M and low homology subject, your sequence is shorter than subject: 101 - 158

Fln protein: MHVRKVLDVLKKNQLFLKMSKCEFGKTSLVYLGHIVGGGALRIDPAKIEAIVKWPTPKSITEVRSFLGAAQYWRKFISNFSSIAAPMHAVTSVKHAFQWG*

Protein Length: 102

Fln nts: TTTAGATGACATCTTAATTTTCAGCAAGTCTAGAGAAGATCATGTC_-_ATGCATGTTAGAAAAGTACTTGATGTTTTGAAGAAGAATCAGTTATTTCTTAAAATGTCAAAGTGTGAATTTGGAAAGACTTCTTTGGTTTATTTGGGACACATAGTAGGAGGAGGTGCTTTGAGAATTGATCCTGCTAAGATTGAGGCTATTGTAAAGTGGCCTACTCCCAAATCCATAACAGAGGTAAGAAGTTTTTTGGGTGCAGCTCAATATTGGAGGAAGTTTATCTCTAACTTCTCTTCTATAGCAGCTCCTATGCATGCAGTGACAAGTGTGAAGCATGCTTTCCAATGGGGATGAGTGACAGCCAAGGTCACGACG

Fln Alignment:

AllPineV4_c38422___HVRKVLDVLKKNQLFLKMSKCEFGKTSLVYLGH--IVGGGALRIDPAKIEAIVKWPTPKSITEVRSFLGAAQYWRKFISNFSSIAAPMHAVTSVKHAFQW
P92523_______________HLGMVLQIWEQHQFYANRKKCAFGQPQIAYLGHRHIISGEGVSADPAKLEAMVGWPEPKNTTELRGFLGLTGYYRRFVKNYGKIVRPLTELLK-KNSLKW

SNPs (tot: 2)

Position	A %	C %	G %	T %	Probability
166		66		33	0.997476
184		66		33	0.997467

Back

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