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_unigene24081

Length: 396 nt

UniGene Fasta

>sp_v3.0_unigene24081
GCAATCAGTTGTATTTACATGGGGGTTCGATGCGCTGACCCCGCGCAGGGCGTCGAGAACACACGCACGTTCCTGCTCAACTGGCTGAGCTTCCTGCATCGTTACATTCCCGTCGGCCTCCTCGAGCGCCTCCCGTCGAAGATCAACGACCGGCCGCCGCCGTTCTGCGGTCGCTCCGATCTCGAGACGCTCCTAGCAAGCAGCGGTACGCTCCGTGCAGTGATCAGATCGATGTAGAAACTGTCTCACATGGAGGCAGACGTGAAGGACTGGGTGAAGATCTCCGAGATGTTCCTTGGTAAGGTGCCCGACGGCTTTTCTTTCGTTCCGAAACACAAGAGCGCGACCTACAAGGAGGACAGCGCGGGCGCAGCCAATGATGGCGCCGCAAGAGGT

Ace file of the UniGene sp_v3.0_unigene24081

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Zinc finger protein n=1 Tax=Ciona intestinalis RepID=Q1RLG4_CIOIN	-	-	3.0e-28	58%
FL-Next	sp=tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like; Oryza sativa subsp. japonica (Rice).	-	-	0.0	49%

Source	Gene names
Sma3	At4g38890; F19H22.4; MICPUCDRAFT_17474; MICPUN_99494; PHATRDRAFT_13664; POPTRDRAFT_201036;

Source	GOs	Term	Type	Identity
Sma3	vacuole	GO:0005773	Cellular Component	-
Sma3	tRNA dihydrouridine synthase activity	GO:0017150	Molecular Function	-
Sma3	flavin adenine dinucleotide binding	GO:0050660	Molecular Function	-
Sma3	tRNA processing	GO:0008033	Biological Process	-
Sma3	oxidation-reduction process	GO:0055114	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Zinc finger, CCCH-type	IPR000571	-	-
Sma3	tRNA-dihydrouridine synthase	IPR001269	-	-
Sma3	Aldolase-type TIM barrel	IPR013785	-	-
Sma3	tRNA-dihydrouridine synthase, conserved site	IPR018517	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT4G38890.1	FMN-linked oxidoreductases superfamily protein chr4:18135909-18139100 REVERSE LENGTH=691	3.0e-27	50%
RefSeq	Arabidopsis thaliana	NP_195600.2	tRNA-dihydrouridine synthase 3-like protein [Arabidopsis thaliana]	4.0e-27	50%
RefSeq	Populus trichocarpa	XP_002313751.1	predicted protein, partial [Populus trichocarpa]	9.0e-28	51%

Full-Lengther Next Prediction

Fln status: Putative C-terminus

Fln database: sp_plants

Fln subject: Q7XT07

Fln msg: STOP codon was not found. Distance to subject end: 9 aas, your sequence is shorter than subject: 132 - 685

Fln protein: AISCIYMGVRCADPAQGVENTRTFLLNWLSFLHRYIPVGLLERLPSKINDRPPPFCGRSDLETLLASSGTLRAVIRSM*KLSHMEADVKDWVKISEMFLGKVPDGFSFVPKHKSATYKEDSAGAANDGAARG

Protein Length: 133

Fln nts: GCAATCAGTTGTATTTACATGGGGGTTCGATGCGCTGACCCCGCGCAGGGCGTCGAGAACACACGCACGTTCCTGCTCAACTGGCTGAGCTTCCTGCATCGTTACATTCCCGTCGGCCTCCTCGAGCGCCTCCCGTCGAAGATCAACGACCGGCCGCCGCCGTTCTGCGGTCGCTCCGATCTCGAGACGCTCCTAGCAAGCAGCGGTACGCTCCGTGCAGTGATCAGATCGATGTAGAAACTGTCTCACATGGAGGCAGACGTGAAGGACTGGGTGAAGATCTCCGAGATGTTCCTTGGTAAGGTGCCCGACGGCTTTTCTTTCGTTCCGAAACACAAGAGCGCGACCTACAAGGAGGACAGCGCGGGCGCAGCCAATGATGGCGCCGCAAGAGGT

Fln Alignment:

Contig24081___AQGVENTRTFLLNWLSFLHRYIPVGLLERLPSKINDRPPPFCGRSDLETLLASSGTLRAVIRSM*KLSHMEADVKDWVKISEMFLGKVPDGFSFVPKHKSATYKEDSAG
Q7XT07_______________SKGVETTRYFLLEWLSYTCRYIPVGLLDVIPQRLNWRPPSYCGRDDLETLMISD------------------SAADWIRISEMLLGKVPEGFTFTPKHKSNAYDRAENG

SNPs (tot: 2)

Position	A %	C %	G %	T %	Probability
94		80		20	0.995493
286		75	25		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