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_unigene20226

Length: 408 nt

UniGene Fasta

>sp_v3.0_unigene20226
ATGGGGGGTGTTGAAGGAATATCTATAAATATAGATGCCTGTACAGCTCTATATATGTACTTCAGGCTGTGCGGTCTCACCTTTCTCTGTTTCGCGTAGCGATTTATCATACGGAGTGATCCATTTCGCAAATCGATCTCCTGAGGGGAACGCTCTTTGAATATATCGGGCACTCAGCGAAGATGAAGCCTTTGTACTGTGGAAACATAGAGTACGCTGTTCGGCAGATAGAGATTGAACGATTGTTTGGTAGATATGGAAGAGTCGACAGGGTTGATATGAAATCAGGTTATGCTTTCATCTACATGGAAGATGAGCGTGATGCAGAGGATGCAATCCGAGGGCTTGACAATACAGAATTTGGCAGACAAAGACGGAGGCTAACTGTAGAGTGGACAAAGCATGCTG

Ace file of the UniGene sp_v3.0_unigene20226

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Arginine/serine-rich splicing factor RSP41, putative [Solanum demissum]	-	-	2.0e-27	69%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	98%
Sma3	Arginine/serine-rich splicing factor RSP41	-	-	1.565e-16	-

Source	Gene names
Sma3	AT2G46610; AT4G25500; AT4g25500; AT5G52040; At2g46610; At3g61860; At4g25500; At5g52040; F21F14.30; GSVIVT00008658001; GSVIVT00026247001; H0716A07.4; M7J2.130; OSJNBa0020P07.8; Os02g0122800; Os04g0118900; OsI_05650; OsI_14641; OsJ_05182; OsJ_13581; P0575F1

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	spliceosomal complex	GO:0005681	Cellular Component	-
Sma3	nuclear speck	GO:0016607	Cellular Component	-
Sma3	nucleotide binding	GO:0000166	Molecular Function	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	nuclear mRNA splicing, via spliceosome	GO:0000398	Biological Process	-
Sma3	RNA splicing	GO:0008380	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	Ribosomal RNA adenine methylase transferase	IPR001737	-	-
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT4G25500.1	ATRSP35, ATRSP40, AT-SRP40, RSP35, RS40, At-RS40 arginine/serine-rich splicing factor 35 chr4:13025168-13027243 FORWARD LENGTH=350	5.0e-31	69%
RefSeq	Arabidopsis thaliana	NP_001190837.1	arginine/serine-rich-splicing factor RSP40 [Arabidopsis thaliana]	6.0e-31	69%
RefSeq	Populus trichocarpa	XP_002301321.1	predicted protein [Populus trichocarpa]	1.0e-35	73%

Full-Lengther Next Prediction

Fln status: N-terminus

Fln database: coniferopsida.fasta

Fln subject: A9NRJ0

Fln msg: Distance to subject end: 224 aas, your sequence is shorter than subject: 75 - 299

Fln protein: MKPLYCGNIEYAVRQIEIERLFGRYGRVDRVDMKSGYAFIYMEDERDAEDAIRGLDNTEFGRQRRRLTVEWTKHA

Protein Length: 76

Fln nts: ATGGGGGGTGTTGAAGGAATATCTATAAATATAGATGCCTGTACAGCTCTATATATGTACTTCAGGCTGTGCGGTCTCACCTTTCTCTGTTTCGCGTAGCGATTTATCATACGGAGTGATCCATTTCGCAAATCGATCTCCTGAGGGGAACGCTCTTTGAATATATCGGGCACTCAGCGAAG_-_ATGAAGCCTTTGTACTGTGGAAACATAGAGTACGCTGTTCGGCAGATAGAGATTGAACGATTGTTTGGTAGATATGGAAGAGTCGACAGGGTTGATATGAAATCAGGTTATGCTTTCATCTACATGGAAGATGAGCGTGATGCAGAGGATGCAATCCGAGGGCTTGACAATACAGAATTTGGCAGACAAAGACGGAGGCTAACTGTAGAGTGGACAAAGCATGCTG

Fln Alignment:

Contig20226___MKPLYCGNIEYAVRQIEIERLFGRYGRVDRVDMKSGYAFIYMEDERDAEDAIRGLDNTEFGRQRRRLTVEWTKHA
A9NRJ0_______________MKPLYCGNIEYAVRQIEIERLFGRYGRVDRVDMKSGYAFIYMEDERDAEDAIRGLDNTDFGRQRRRLTVEWTKHA

SNPs (tot: 3)

Position	A %	C %	T %	Probability
13	25		75	0.996473
32	75		25	0.996473
81	25	75		0.996473

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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