SustainPineDB

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

Assembly Name: uagpf v2.0

UniGene Name: uagpf_v2_unigene49801

Length: 429 nt

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

UniGene Fasta (sense)

>uagpf_v2_unigene49801
CGTCGTGACCTTGGCTGTCACTCATTGTAATGTTGAACAACAATTTAATATAAAAAGGTTGTTTCAGAGTATGATGTCTTATTTCAAGAACCTAAAGGTCTGCTACCCAGAAAGCGAATAGTACATGATACTATTTTGCAGTAATATGTTCCATTGCCTAACATTGGAATGTACAGGTTGTATGCTTTAGAGAATGCTAAAATCAAGAATCAGGTGTAGGAGTTGCTCAAGAAAGGGTTCATCAGGCCTAGCACATCACCATGTGGGTCACCAACCGTTTTGGTGAGAAAGAAAGGTGGCTCATGGAGAATGTGCATTGACTACCGAGCACTGAATAAGATAACAATTAAAAATCGTTATCCCCTTCCTCGTATAGATGATCTTTTAGATCAATTGAAGGAAGTTTGAGTGACAGCCAAGGTCACGACG

Ace file of the UniGene uagpf_v2_unigene49801 (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

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene22251	4/4

Source	Descriptions	Term	Type	Identity
AutoFact	OSJNBa0017P10.4 protein n=1 Tax=Oryza sativa Japonica Group RepID=Q7XQ51_ORYSJ	-	-	54%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	44%
Blast2go	gag-pol polyprotein	-	-	67%

Source	GOs	Term	Type	e value	Identity
Blast2go	binding	GO:0005488	Molecular Function	0.0	67%

Source	InterPros	Term	Type	Identity
Sma3	ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domain	IPR000194	-	-
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	ABC transporter-like	IPR003439	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	Peptidase C48, SUMO/Sentrin/Ubl1	IPR003653	-	-
Sma3	Putative S-adenosyl-L-methionine-dependent methyltransferase	IPR004159	-	-
Sma3	Auxin efflux carrier	IPR004776	-	-
Sma3	Retrotransposon gag protein	IPR005162	-	-
Sma3	Domain of unknown function DUF659	IPR007021	-	-
Sma3	HAT dimerisation	IPR008906	-	-
Sma3	Peptidase aspartic, catalytic	IPR009007	-	-
Sma3		IPR013084	-	-
Sma3	Retroviral aspartyl protease	IPR013242	-	-
Sma3	Zinc finger, H2C2-type, histone UAS binding	IPR015416	-	-

Full-Lengther Next Prediction

Fln status: Putative Complete

Fln database: coniferopsida.fasta

Fln subject: A9NWN2

Fln msg: query STOP codon is far from subject stop. Distance to subject end: 16 aas, W1: There is no M at the beginning,

Fln protein: ELLKKGFIRPSTSPCGSPTVLVRKKGGSWRMCIDYRALNKITIKNRYPLPRIDDLLDQLKEV*

Protein Length: 64

Fln nts: CGTCGTGACCTTGGCTGTCACTCATTGTAATGTTGAACAACAATTTAATATAAAAAGGTTGTTTCAGAGTATGATGTCTTATTTCAAGAACCTAAAGGTCTGCTACCCAGAAAGCGAATAGTACATGATACTATTTTGCAGTAATATGTTCCATTGCCTAACATTGGAATGTACAGGTTGTATGCTTTAGAGAATGCTAAAATCAAGAATCAGGTGTAGGAGTTGCTCAAGAAAGGGTTCATCAGGCCTAGCACATCACCATGTGGGTCACCAACCGTTTTGGTGAGAAAGAAAGGTGGCTCATGGAGAATGTGCATTGACTACCGAGCACTGAATAAGATAACAATTAAAAATCGTTATCCCCTTCCTCGTATAGATGATCTTTTAGATCAATTGAAGGAAGTTTGA___GTGACAGCCAAGGTCACGACG

Fln Alignment:

uagpf_mira_rep_c54053___SPTVLVRKKGGSWRMCIDYRALNKITIKNRYPLPRIDDLLDQL
A9NWN2________________TPIILVRINDGSYILCNNCRVLNEITIKDKFHISIVDELLDEL

SNPs (tot: 21)

Position	A %	C %	G %	T %	Probability
155	25		75		0.996479
185		66		33	0.997452
201		33		66	0.997452
213	66		33		0.997452
220	75	25			0.99649
224		33		66	0.997452
231		25		75	0.99649
233	33		66		0.997452
248			33	66	0.997452
249	66		33		0.997452
262		33		66	0.997452
274		66		33	0.997452
285	66	33			0.997452
288	66		33		0.997452
299	25		75		0.996478
315		33	66		0.997452
321		75		25	0.996474
329		75		25	0.996475
333	25	75			0.996483
334		66		33	0.997452
335			33	66	0.997452

Back

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