SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene7364

Length: 1436 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene7364

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Ribonucleoprotein, chloroplast, putative n=1 Tax=Ricinus communis RepID=B9SQT1_RICCO	-	-	0.0	46%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	76%

Source	Gene names
Sma3	AT1G60000; At1g60000; GSVIVT00003533001; GSVIVT00020349001; LOC_Os03g25960; OJ1293_E04.28; OSJNBb0048D20.12; Os02g0815200; Os03g0376600; Os07g0631900; OsI_09422; OsI_11785; OsI_26976; OsJ_08857; OsJ_11032; OsJ_25244; P0519E12.113; P0643F09.1; PHYPADRAFT_1

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	ribonucleoprotein complex	GO:0030529	Cellular Component	-
Sma3	nucleotide binding	GO:0000166	Molecular Function	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	mRNA processing	GO:0006397	Biological Process	-
Sma3	transport	GO:0006810	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	Nuclear transport factor 2	IPR002075	-	-
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-
Sma3	Nuclear transport factor 2, Eukaryote	IPR018222	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G60000.1	RNA-binding (RRM/RBD/RNP motifs) family protein chr1:22093678-22094540 REVERSE LENGTH=258	50%
RefSeq	Arabidopsis thaliana	NP_176208.1	RNA recognition motif-containing protein [Arabidopsis thaliana]	50%
RefSeq	Populus trichocarpa	XP_002311696.1	predicted protein [Populus trichocarpa]	53%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: D5ADT2

Fln msg:

Fln protein: MAAVSSCFSLATAHAQMKALPASLESIGPWAKAVCSRVYMPNSACSLEVCYSPCSWSPVLSPSLSRKGVFRLSSSSVTQEGMQLVSEADEEKGGEEEDAQETAESSDDIPSGTKVYLGNLPFTCDSAEVAGIIQEHGSVEMVEVVYDRNTGTSRGFAFATMSSVEDANAVVENLDGSQYGGRTLRVNLRDKSRTEQRNQSSNNSVEGQHRVYIGNLSWDINAEILSEVFREYGNLLNAKVVYDRATGRSRGFGFINFSKQSEAAAAVASLNGKELEGRTMRVDLALSSRNTE*

Protein Length: 294

Fln nts: ATGGGGGTATGATCTGTGGCCTTCCCCTCGGGCATGTTTGTAGCTCCTTATCCAGTCCATGTTTACGTCATATATTTGGCCTCCAAATCCGTGTCTCCTGCTGATATCTTATACTTCGACACAGTTAGATGAAGCCGTAAATCGAGATCTTTTTAAGCACTTGCATTCTAATGTTGGGATTTTAAATTCGGCAGCAGATCATATTTCTGATATCACATTTTTCTGCGTATGTGAGTTGGAAATTTTCGTGGTCTAAAGATC_-_ATGGCGGCTGTTTCTTCATGCTTCTCTCTGGCAACTGCCCATGCCCAAATGAAAGCATTACCGGCTTCGCTGGAGTCAATAGGACCATGGGCTAAAGCTGTGTGTTCTCGTGTATATATGCCTAACAGCGCTTGTTCCCTGGAAGTCTGCTATTCTCCTTGCTCATGGAGCCCTGTTCTCAGTCCATCCTTGAGCAGGAAAGGTGTGTTCAGATTGTCATCATCATCAGTGACCCAAGAAGGGATGCAGTTGGTATCAGAGGCGGACGAGGAGAAAGGTGGAGAAGAAGAAGACGCCCAAGAGACAGCTGAATCATCAGATGATATTCCTTCTGGAACTAAAGTGTATTTGGGCAATCTACCTTTTACCTGTGACAGCGCTGAAGTGGCTGGAATCATTCAGGAGCATGGGAGTGTGGAGATGGTAGAGGTAGTTTATGACAGGAACACTGGAACAAGCCGTGGATTTGCGTTTGCAACAATGAGCAGTGTTGAGGATGCCAATGCTGTGGTTGAGAATCTTGATGGAAGTCAATACGGTGGTCGCACGTTGCGGGTCAACTTACGAGATAAGTCAAGGACGGAACAGAGAAATCAAAGCAGCAACAACTCTGTGGAAGGCCAACATCGAGTATATATAGGCAATCTGTCATGGGATATAAATGCAGAAATCCTGAGTGAAGTGTTCAGAGAGTATGGTAACTTGCTGAATGCAAAAGTAGTGTATGACCGAGCAACAGGAAGGTCTCGAGGCTTTGGGTTTATTAATTTCTCAAAACAGTCTGAAGCAGCAGCTGCTGTTGCTTCATTGAATGGAAAGGAATTGGAAGGACGGACCATGCGGGTGGATTTAGCATTGTCGAGCCGAAATACTGAATGA___AACCATTGATAAACTGAGTTGTGTTTTTGAAAGCAAAGATTTGGCACTCTGGAAAAGACGCCATCATCACAACTTTTAGATAGCTTCATATCTTCCTTTTCCACACAATGGTATGATGCATATTCCACTTTTAGACAGCTCCATATCTTCCTTTTCCACACAATGGTATGATACATATTCCATTGTATTCAGTCTGGAATTTTACGGGTATGGGCGTGCAACTCGGGCAAACATATGTACAAGTTGGCCATGGGGACGGTCATATGAATCAGCCAATTTATAAGCATATGTTTTAC

Fln Alignment:

Contig7364___MAAVSSCFSLATAHAQMKALPASLESIGPWAKAVCSRVYMPNSACSLEVCYSPCSWSPVLSPSLSRKGVFRLSSSSVTQEGMQLVSXXXXXXXXXXXXXXXTAESSDDIPSGTKVYLGNLPFTCDSAEVAGIIQEHGSVEMVEVVYDRNTGTSRGFAFATMSSVEDANAVVENLDGSQYGGRT------------LRVNLRDKSRTEQRNQSSNNSVEGQHRVYIGNLSWDINAEILSEVFREYGNLLNAKVVYDRATGRSRGFGFINFSKQSEAAAAVASLNGKELEGRTMRVDLALSSRNTE
D5ADT2______________MAGASSCFSLATAHVHLKAIPASLEPIGPWAKAVFSRVYMPNSACSMEVCYSPCSWNPVLSPALSRKGMFRLSSSSVTQEGMQSVSEEEKSGEEEDAPEI--SEPLHDIPAGTKVYLGNLPFSCDSAELAGIIQEHGSVEMVEVIYDQNTGRSRGFAFATMSSVEDANALVENLDGSQYGGRTLRVNLREEASRSLRVNLRDKSRSEQRNQTNN---DGQHRVYIGNLSWDVNEEILNEVFSEHGNLLDAKIVFDRETGRSRGFGFITFSTQSEAEAAVASLNGKELEGRAMRVDLALSSRNIE

SNPs (tot: 11)

Position	A %	C %	G %	T %	Probability
891		10	90		0.90298
893			90	10	0.90298
920	88		11		0.923564
983	11		88		0.923564
984		11		88	0.923564
985	11		88		0.923564
1004	87	12			0.992554
1005	12		87		0.992554
1006			87	12	0.992554
1181		28		71	1.0
1199	57		42		1.0

SSRs (tot: 2)

Start position	End position	Sequence	Length
478	489	TCA TCA TCA TCA	12
543	554	AGA AGA AGA AGA	12

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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