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_unigene25664

Length: 523 nt

UniGene Fasta

>sp_v3.0_unigene25664
TCATCAAGGTCAACGACGTTGTCAAGATCGACCTCGAGACCGGCAAGATCGTCGACTTCGTCAAGTTCGAGACCGGCAACCTCGTGACCGTCACCGGCGGCCGTAACGCTGGCCGTGTCGGTATCCTTCACCACATCGAAAGACACGAGGGTTCGTTCAACATCGCGCACATCAAGGACTCGGCGGGCCACGGCTTCGCCACGCGTCTTGGCAACGTGTTCGTGATCGGTAACGAGGCGCGCCCACTGGTGTCGCTGCCAAAGGGCAAGGGCATCAAGCTCAGCATCCTTGAGGAGCGCACCGTGCGTGAGAACAAGGCCAAGAACTAAGCTAGATGCTAGCTCGTTCGCAACCACCCGGCGTGCCAACTAGTTTCCGTTCTTCTGTGCGGCCCGGCCCTTAGAACTGTTCTCTCCACGGAACGGCTCGGGGACGGAACCGTGCGGGAACGGAAATGGCATGCCAACATCAGTTTGTCTCGATAAGGGACGAGGAGAACAATATTATGGAGATTTCCAATCAT

Ace file of the UniGene sp_v3.0_unigene25664

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	40S ribosomal protein S4 n=1 Tax=Phytophthora infestans T30-4 RepID=D0NM53_PHYIT	-	-	1.00053e-42	76%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	62%
Sma3	40S ribosomal protein S4	-	-	2.176e-20	-

Source	Gene names
Sma3	AT5G07090; At2g17360; At5g07090; At5g58420; BiRP1; CHLREDRAFT_188837; F5J6.12; GSVIVT00001285001; GSVIVT00024035001; MICPUCDRAFT_36856; MICPUN_90851; MOJ9.26; MQJ2_10; OJ1393_A07.10; OSTLU_18526; Os01g0358400; Os02g0105900; Os05g0368300; OsI_01884; OsI_05

Source	GOs	Term	Type	Identity
Sma3	nucleolus	GO:0005730	Cellular Component	-
Sma3	ribosome	GO:0005840	Cellular Component	-
Sma3	plasma membrane	GO:0005886	Cellular Component	-
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	cytosolic ribosome	GO:0022626	Cellular Component	-
Sma3	cytosolic small ribosomal subunit	GO:0022627	Cellular Component	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	structural constituent of ribosome	GO:0003735	Molecular Function	-
Sma3	rRNA binding	GO:0019843	Molecular Function	-
Sma3	translation	GO:0006412	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Ribosomal protein S4e	IPR000876	-	-
Sma3	RNA-binding S4 domain	IPR002942	-	-
Sma3	KOW	IPR005824	-	-
Sma3	Ribosomal protein S4e, N-terminal	IPR013843	-	-
Sma3	Ribosomal protein S4e, central	IPR013845	-	-
Sma3	Ribosomal protein S4e, N-terminal, conserved site	IPR018199	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT5G58420.1	Ribosomal protein S4 (RPS4A) family protein chr5:23619599-23620896 FORWARD LENGTH=262	1.0e-39	62%
RefSeq	Arabidopsis thaliana	NP_001031846.1	40S ribosomal protein S4-2 [Arabidopsis thaliana]	1.0e-39	62%
RefSeq	Populus trichocarpa	XP_002308235.1	predicted protein [Populus trichocarpa]	4.00001e-41	62%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: coniferopsida.fasta

Fln subject: A9NKK9

Fln msg: your sequence is shorter than subject: 109 - 263

Fln protein: IKVNDVVKIDLETGKIVDFVKFETGNLVTVTGGRNAGRVGILHHIERHEGSFNIAHIKDSAGHGFATRLGNVFVIGNEARPLVSLPKGKGIKLSILEERTVRENKAKN*

Protein Length: 110

Fln nts: TCATCAAGGTCAACGACGTTGTCAAGATCGACCTCGAGACCGGCAAGATCGTCGACTTCGTCAAGTTCGAGACCGGCAACCTCGTGACCGTCACCGGCGGCCGTAACGCTGGCCGTGTCGGTATCCTTCACCACATCGAAAGACACGAGGGTTCGTTCAACATCGCGCACATCAAGGACTCGGCGGGCCACGGCTTCGCCACGCGTCTTGGCAACGTGTTCGTGATCGGTAACGAGGCGCGCCCACTGGTGTCGCTGCCAAAGGGCAAGGGCATCAAGCTCAGCATCCTTGAGGAGCGCACCGTGCGTGAGAACAAGGCCAAGAACTAA___GCTAGATGCTAGCTCGTTCGCAACCACCCGGCGTGCCAACTAGTTTCCGTTCTTCTGTGCGGCCCGGCCCTTAGAACTGTTCTCTCCACGGAACGGCTCGGGGACGGAACCGTGCGGGAACGGAAATGGCATGCCAACATCAGTTTGTCTCGATAAGGGACGAGGAGAACAATATTATGGAGATTTCCAATCAT

Fln Alignment:

Contig25664___IKVNDVVKIDLETGKIVDFVKFETGNLVTVTGGRNAGRVGILHHIERHEGSFNIAHIKDSAGHGFATRLGNVFVIGNEARPLVSLPKGKGIKLSILEERTVRENKA
A9NKK9_______________VKANDTIKIDLETGKIKEFIKFDVGNVVMVTGGRNRGRVGVIKHREKHKGSFEIIHVQDAAGQEFATRQGNVFTIGKGTKPWVSLPKGKGVKLSIIEEARKRHAAA

SNPs (tot: 3)

Position	A %	C %	T %	Probability
259		75	25	0.996473
290		25	75	0.996473
522	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