SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene140437

Length: 1020 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene140437 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Putative U2 snRNP auxiliary factor (Fragment) n=1 Tax=Chenopodium rubrum RepID=Q1H8Q9_CHERU	-	-	9.0e-13	73%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	81%
Sma3	Splicing factor U2af 38 kDa subunit	-	-	2.9e-08	-

Source	Gene names
Sma3	LOC_Os05g48960; MICPUN_71437; OSJNBb0053D02.11; Os05g0564200; OsJ_018769; OsJ_19555; PHYPADRAFT_194373; PHYPADRAFT_25638; POPTRDRAFT_676151; POPTRDRAFT_741667; RCOM_0382140; U2AF35B; u2snRNP;

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	nucleotide binding	GO:0000166	Molecular Function	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	mRNA processing	GO:0006397	Biological Process	-
Sma3	RNA splicing	GO:0008380	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	Zinc finger, CCCH-type	IPR000571	-	-
Sma3	U2 auxiliary factor small subunit	IPR009145	-	-
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT5G42820.2	ATU2AF35B, U2AF35B Zinc finger C-x8-C-x5-C-x3-H type family protein chr5:17170445-17171296 REVERSE LENGTH=283	8.0e-16	60%
RefSeq	Arabidopsis thaliana	NP_199096.1	Splicing factor U2af small subunit B [Arabidopsis thaliana]	1.0e-15	60%
RefSeq	Populus trichocarpa	XP_002307825.1	predicted protein [Populus trichocarpa]	1.0e-13	62%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: D5ABW9

Fln msg: Separated hits, possible frame ERROR between 528 and 558, Distance to subject end: 44 aas,

Fln protein: ENTCQTCWLLNFMHLKQISRELRRQLYGRYRRYGHGYSRSRSRTRSPRLSAERHRGYNDRPVGGHGYDEHPHGGRGYDDRLQGGRGFGRGNDRDYPGNDDDRHGRRPHCRSPGHRRGRSRSHSPMRNRSPAREGSAERRAKIEQWNREREQAAACSNANQSMQNGGEHSYKPGYGxxxxxxxxxxxQAIIVDLCLVTDFRGATCRKY*ENT*NRSGYCTFMHLKKISRELRWQLLGRYRQYGHGLSAISRELIIIGCSYDGERFSGTFLMASRSGLEVVNYQKKHCSATKPMVGWNVVHLSSVAHNIGSSLDKYCGGLHLFNVNNVNEKEMVIVEMFCSL

Protein Length: 341

Fln nts: GAGAATACATGTCAAACGTGCTGGCTACTGAATTTTATGCACCTTAAGCAGATCAGCAGGGAGCTGAGGCGGCAATTATATGGAAGGTATAGACGATATGGCCATGGTTACAGTAGAAGCCGGAGTCGAACTCGTAGTCCACGGCTTTCTGCAGAAAGACACCGTGGTTATAATGACCGTCCTGTTGGTGGCCATGGGTATGATGAACATCCTCATGGTGGTCGGGGATATGATGACCGTCTCCAAGGTGGTCGTGGTTTTGGTAGGGGAAATGACAGGGATTATCCTGGTAATGATGATGATAGACATGGGAGAAGGCCGCACTGTCGCAGTCCAGGTCACAGACGAGGTCGGAGCAGGAGCCACAGCCCTATGAGGAATAGAAGTCCAGCGCGAGAAGGCAGTGCAGAGAGGAGAGCTAAAATTGAACAGTGGAATAGAGAGAGAGAACAAGCAGCGGCATGTTCCAATGCTAACCAGTCCATGCAAAATGGAGGGGAGCATTCATATAAGCCTGGCTATGGCTAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGCAAGCAATCATAGTGGATCTCTGTCTTGTTACTGACTTCCGTGGAGCAACATGTAGGAAGTATTAAGAGAATACTTGAAACCGTAGTGGTTACTGTACCTTTATGCATCTCAAGAAGATCAGCAGGGAGCTGAGGTGGCAATTACTTGGAAGGTATAGACAATATGGCCATGGGCTTAGTGCGATCTCAAGGGAACTCATTATCATAGGATGTAGTTATGATGGAGAAAGGTTCAGTGGAACTTTTCTCATGGCTTCTAGGTCTGGGTTGGAGGTGGTCAACTACCAAAAAAAACATTGCAGTGCAACTAAACCTATGGTGGGGTGGAATGTAGTTCACCTCTCATCAGTTGCACACAACATTGGATCTTCATTAGATAAGTATTGTGGTGGACTTCATCTCTTTAATGTAAACAATGTTAACGAGAAAGAAATGGTAATTGTTGAAATGTTTTGTAGTTTAA

Fln Alignment:

AllPine_a_rep_c100247___ENTCQTCWLLNFMHLKQISXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSAERHRGYNDRPVGGHGYDEHPHGGRGYXXXXXXXXXXXXXXXXDYPGNDDDXXXXXXXXXXXXXXXXXXXXXXPMRNRSPAREGSAERRAKIEQWNREREQAAACSNANQSMQNGGEHSYKPGYGYxxxxxxxxxxQAIIVDLCLVTDFRGATCRKY*ENT*NRSGYCTFMHLKKISRELRWQLLGRYRQYGHGLSAISRELIIIGCSYDGER
D5ABW9________________ENTCNRGGYCNFMHLKKISRELRRQLFGRYRRYGHGYSRSRSRSLSPGLSVERHRGYDDRPRGGRGYDDRPYGGRGYDDRPHGGRGFGRKNERDYPGYHDDRHGRRPRSRSPGHRQGRSRSHSPKRNRSPVREGSAERRAKIEQWNREREQAAASSDANQSMQNGGAHSYQPGYGYxxxxxxxxxxRAIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKKISRELRRQLFGRYRRYGHGYSRSRSRSLSPGLSVERHR

SNPs (tot: 24)

Position	A %	C %	G %	T %	Probability
249		83		16	0.994512
250			16	83	0.994512
251	83			16	0.994512
441		71	28		1.0
462	16	83			0.994512
463			16	83	0.994512
468	16			83	0.994512
469		85	14		0.993533
470	85	14			0.993533
471	85	14			0.993533
476		85		14	0.993533
479		14	85		0.993533
480			14	85	0.993533
482		14		71	0.984337
483			14	85	0.993533
641	20			80	0.995493
642	20			80	0.995493
770		66		33	0.997452
773	16	83			0.994512
775	83		16		0.994512
776		83		16	0.994512
780		83	16		0.994512
781	16			83	0.994512
782		16		83	0.994512

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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