SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene142762

Length: 505 nt

UniGene Fasta

>sp_v3.0_unigene142762
ATTGGGTAGAGTTGATCTTCAAGAGAAGAAGTGCCTGATGTTTGAAGACTTTTAAGATAATTCACCTCACAAGGGAAGAAGTGCCTGATGTTTGAAGACTTAAGATAATTTCCCTCACAAGGGAAGAAATGCCTGATGTTTGAAGACTTAAGATAATTCACCTCAAAATTAAGTAATTGTTTGTCGAAGATAGATCGTCGGACAACTGAAGTGGTGTATATACTAAGAAGATAGAAATTGGAGCAAAGTTGTGCCTCAATAGTTCAAACTTCATGCATTTTCAAGTCAAGTGAAGAATTTGAAGTTTCATTCATGTATTGAAGTGGCGATCATATTGACTGTAGAAGCAAGGGAGCCTCGTGGTTTTGGTTTTGTGCAGTTTATGGATCCTCAAGATGCTGCAGAGGCTCAATATCATATGGATGGCCAGTTTATTGGTGGGCGTGAGATCACTGTTGTTCTTGCTGAAGAAAATAGGAAAAAGCCTGATGAAATGAGAGACATT

Ace file of the UniGene sp_v3.0_unigene142762

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	putative splicing factor [Oryza sativa Japonica Group] gb\|ABF96207.1\| RNA recognition motif family protein, expressed [Oryza sativa Japonica Group] gb\|EEC75348.1\| hypothetical protein OsI_11773 [Oryza sativa Indica Group] gb\|EEE59134.1\| hypothetical prote	-	-	8.0e-16	75%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	95%
Sma3	Serine/arginine rich splicing factor, putative	-	-	7.554e-16	-

Source	Gene names
Sma3	AT1G55310; At1g55310; At3g13570; At5g18810; GSVIVT00024777001; LOC_Os03g24890; LOC_Os03g25770; LOC_Os12g38430; OJ1113_G05.32; OSJNBa0009N02.7; OSJNBa0090L05.13; Os02g0252100; Os03g0363800; Os03g0374500; Os07g0633200; Os12g0572400; OsI_06591; OsI_11679; Os

Source	GOs	Term	Type	Identity
Sma3	nucleolus	GO:0005730	Cellular Component	-
Sma3	plasma membrane	GO:0005886	Cellular Component	-
Sma3	nuclear speck	GO:0016607	Cellular Component	-
Sma3	interchromatin granule	GO:0035061	Cellular Component	-
Sma3	nucleotide binding	GO:0000166	Molecular Function	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	identical protein binding	GO:0042802	Molecular Function	-
Sma3	nuclear mRNA splicing, via spliceosome	GO:0000398	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	IQ motif, EF-hand binding site	IPR000048	-	-
Sma3	ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domain	IPR000194	-	-
Sma3	Protamine P1	IPR000221	-	-
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-
Sma3	EF-Hand 1, calcium-binding site	IPR018247	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT1G55310.3	-	6.0e-20	74%
RefSeq	Arabidopsis thaliana	NP_001185236.1	SC35-like splicing factor 33 [Arabidopsis thaliana]	8.0e-20	74%
RefSeq	Populus trichocarpa	XP_002323350.1	predicted protein, partial [Populus trichocarpa]	3.0e-19	71%

Full-Lengther Next Prediction

Fln status: Putative N-terminus

Fln database: coniferopsida.fasta

Fln subject: A9NPS4

Fln msg: Distance to subject end: 150 aas, Unexpected STOP codon in 5 prime region, your sequence is shorter than subject: 81 - 275

Fln protein: FKLHAFSSQVKNLKFHSCIEVAIILTVEAREPRGFGFVQFMDPQDAAEAQYHMDGQFIGGREITVVLAEENRKKPDEMRDI

Protein Length: 82

Fln nts: ATTGGGTAGAGTTGATCTTCAAGAGAAGAAGTGCCTGATGTTTGAAGACTTTTAAGATAATTCACCTCACAAGGGAAGAAGTGCCTGATGTTTGAAGACTTAAGATAATTTCCCTCACAAGGGAAGAAATGCCTGATGTTTGAAGACTTAAGATAATTCACCTCAAAATTAAGTAATTGTTTGTCGAAGATAGATCGTCGGACAACTGAAGTGGTGTATATACTAAGAAGATAGAAATTGGAGCAAAGTTGTGCCTCAATAGTTCAAACTTCATGCATTTTCAAGTCAAGTGAAGAATTTGAAGTTTCATTCATGTATTGAAGTGGCGATCATATTGACTGTAGAAGCAAGGGAGCCTCGTGGTTTTGGTTTTGTGCAGTTTATGGATCCTCAAGATGCTGCAGAGGCTCAATATCATATGGATGGCCAGTTTATTGGTGGGCGTGAGATCACTGTTGTTCTTGCTGAAGAAAATAGGAAAAAGCCTGATGAAATGAGAGACATT

Fln Alignment:

AllPine_a_rep_c108511___EPRGFGFVQFMDPQDAAEAQYHMDGQFIGGREITVVLAEENRKKPDEMR
A9NPS4________________EPRGFGFVQFMDPQDAAEAQYHMDGQYIGGREITVVLAEKNRKKPDEMR

SNPs (tot: 4)

Position	A %	C %	G %	T %	Probability
287		66		33	0.997452
397		33		66	0.997452
398	33		66		0.997452
399		66		33	0.997452

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