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_unigene131612

Length: 530 nt

UniGene Fasta

>sp_v3.0_unigene131612
CGTCGTGACCTTGGCTGTCACTCATTTCTACTTTAAGATTGGAGCCTGCAGGCATGGGGATCGGTGTTCAAGGCTGCACACGAGACCAACTATCAGCCCTACTATATTGCTTTCAAATATGTACCAGAGACCTGATATGGTAACTCCTGGAATGGATCTCCAAGGACACGCAATGGATCCTCGGAAGATTCAGGAACATTTTGAGTATTTGATAGTGTCTAACTTCATAGTGGATGTAGCTATGCCACTACAATTCACTGGATCTTATAGGAGATGTAATATTCTATTTTTACGAATATATTAGGATTTTTATGAAGATTTGTTTGAAGAGCTCGGCAAGTATGGAGAAATCGAGAGTTTGAATGTTTGTGACAATTTGGCTGATCATATGGTTGGGAACGTGTATGTGCAATTTCGGGAAGAAGAGCAGGCTGCTAATGCTTTGCGATCTTTGCAAGGCAGGTTTTATGCAGGGCGCCCAATCATAGTGGATTTCTCTCCTGTTACTGATTTTCGTGAAGCAACATAGT

Ace file of the UniGene sp_v3.0_unigene131612

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	U2 auxiliary factor small subunit [Arabidopsis thaliana]	-	-	0.0	65%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	79%
Sma3	U2 snrnp auxiliary factor, small subunit, putative	-	-	2.089e-11	-

Source	Gene names
Sma3	AUSA; AUSB; At1g27650; At5g42820; CHLREDRAFT_142476; GSVIVT00002951001; GSVIVT00021681001; LOC_Os05g48960; LOC_Os09g31482; MICPUCDRAFT_36315; MICPUN_71437; MJB21.20; OSJNBb0053D02.11; OSJNBb0063G05.30; OSTLU_13306; Os01g0667800; Os05g0564200; Os09g0491756

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	-
Sma3	photoperiodism, flowering	GO:0048573	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	Zinc finger, CCCH-type	IPR000571	-	-
Sma3	Short hematopoietin receptor, family 1, conserved site	IPR003531	-	-
Sma3	RNA recognition motif domain, eukaryote	IPR003954	-	-
Sma3	U2 auxiliary factor small subunit	IPR009145	-	-
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G27650.1	ATU2AF35A U2 snRNP auxiliary factor small subunit, putative chr1:9615152-9616042 FORWARD LENGTH=296	68%
RefSeq	Arabidopsis thaliana	NP_174086.1	splicing factor U2af small subunit A [Arabidopsis thaliana]	68%
RefSeq	Populus trichocarpa	XP_002328177.1	predicted protein [Populus trichocarpa]	68%

Full-Lengther Next Prediction

Fln status: Putative N-terminus

Fln database: coniferopsida.fasta

Fln subject: C0PTJ1

Fln msg: Unexpected STOP codon at 3' end. Distance to subject end: 158 aas, atg_distance in limit (1-15): atg_distance = 12, W2: There is no M at the beginning, your sequence is shorter than subject: 176 - 312

Fln protein: VVTLAVTHFYFKIGACRHGDRCSRLHTRPTISPTILLSNMYQRPDMVTPGMDLQGHAMDPRKIQEHFEYLIVSNFIVDVAMPLQFTGSYRRCNILFLRIY*DFYEDLFEELGKYGEIESLNVCDNLADHMVGNVYVQFREEEQAANALRSLQGRFYAGRPIIVDFSPVTDFREAT*

Protein Length: 177

Fln nts: CGTCGTGACCTTGGCTGTCACTCATTTCTACTTTAAGATTGGAGCCTGCAGGCATGGGGATCGGTGTTCAAGGCTGCACACGAGACCAACTATCAGCCCTACTATATTGCTTTCAAATATGTACCAGAGACCTGATATGGTAACTCCTGGAATGGATCTCCAAGGACACGCAATGGATCCTCGGAAGATTCAGGAACATTTTGAGTATTTGATAGTGTCTAACTTCATAGTGGATGTAGCTATGCCACTACAATTCACTGGATCTTATAGGAGATGTAATATTCTATTTTTACGAATATATTAGGATTTTTATGAAGATTTGTTTGAAGAGCTCGGCAAGTATGGAGAAATCGAGAGTTTGAATGTTTGTGACAATTTGGCTGATCATATGGTTGGGAACGTGTATGTGCAATTTCGGGAAGAAGAGCAGGCTGCTAATGCTTTGCGATCTTTGCAAGGCAGGTTTTATGCAGGGCGCCCAATCATAGTGGATTTCTCTCCTGTTACTGATTTTCGTGAAGCAACATAGT

Fln Alignment:

AllPine_a_rep_c85105___FYFKIGACRHGDRCSRLHTRPTISPTILLSNMYQRPDMVTPGMDLQGHAMDPRKIQEHFEYLIVSNFIVDVAMPLQFTGSYRRCNILFLRIY*DFYEDLFEELGKYGEIESLNVCDNLADHMVGNVYVQFREEEQAANALRSLQGRFYAGRPIIVDFSPVTDFREAT
C0PTJ1________________FYFKIGACRHGDRCSRLHTRPTISPTILLSNMYQRPDMVTPGMDIQGHAMDPRKIQEHFE---------------------------------DFYEDLFEELGKYGELESLNVCDNLADHMVGNVYVQFREEEQAANALRSLQGRFYAGRPIIVDFSPVTDFREAT

SNPs (tot: 1)

Position	A %	C %	G %	T %	Probability
198	33		66		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