SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene3495

Length: 2667 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene3495
ACGGCACAATCGTAACCCCATCTTAAAGTGTCCTTATAAACCCGAAGCCATTTCCATTCCATGTTGAGCAGAAGAAAAAGGCATATACCCTGCACAGTGAGCAAACGAACAATAAACAATATTGACATCTGAGTATCAATGGAAAATGAGCAAACTCGTTCAGATAAAGGTCCGGAGAATTCCATTACCATTCTTGAGAACTCCAGTTTCAAAACAAATGAAGAAAAACCCACAGTTGCAGAGGAAAATCCCACTTCTGTGGTGGAGGATGCAGTTGTGGCAAGAACTGATGAGACCATAAACATCCACATCAGTGAAAGCTCAGGACAAGCTGATGCCCTAGCAGCTATTCAAGATTCATGCTCGGGATCTCCTCCCACAGCAGATGCACTGAACCCAAATAGGAAAAGGCCCAGAGACCAGCCAGAAATGGCCAAGCCTGAACAACCACCAAATACAGAGGTAGAAATGGCTGAAAAACACCAGATATAGAAGAAGAAGAAAATGCTACAAAGGTCGCAAAGATCACCAAAGAAGAAGATGGTGTAGAGGAAACGAGAGAAGAAGGGGTTGGCCCACGACATCCAAAGCCCAAGAGGAGGAAAATAGCCATTTTTGTCGCATATTGTGGCGTTGGGTATCAGGGGATGCAGAGGAATCCAGGGGCTAAAACAATAGAGGGTGATTTGGAGGAGGCTTTGTTCAAGGCGGGAGCAATCTCAGAAGACCAGTATGGGGACCCCAGGAAAGTGGATTGGATGAGGTCTGCCAGAACAGACAAGGGGGTAAGTGCTGTTGGTCAGGTGGTTTCTGGGAGATTTTTCATAGACCCACCAGGGCTTGTGGAGAGAGTCAATTCCCACCTCCCAGAGCAGATTAGGGTGCTTGGATACAAGAGGGTGACTGCATCATTCAGTGCCAAGAAGTTCTGTGACAGAAGAAGGTATGAATATGTTATCCCTCTTTTTGCTTTGGATCCTTCTGCTCATAGGGATAGGGAGAGTGTTTTGGCTAGTGAAGGCAAGGAGGGTGCTCTAATCAAATGCTTAGAGTGCTCTGAGAGAGGCAGGAAGGTCCCTGGGCTCATGGGTAAAAAAAACGAACATGGCAAGGAGTTGGAAGCGGTGAATAATGGTGATTTGAATGAGACAACGTTGACAGAACATGAACAGATAGAAAAGATTGTAGATATGCAAAATTCAGAAAAATCTGCCCTACAGCAAAATGGATCGGTCACAGAAAATGGTGATGCCAGTTGTGACAAGAACCCAAATGTGGAGACAACAGCATTGGTTTCCGAGTTGAATTTGGAAAAAGCTGTTCGCCAAGGAGTGTCTGAACTTGAGAACAGTTCACTAGGGCCAGCTCCTGAACCTGCCCATGCCATCCTTGAGAAGAACCCAAATGAAGGATTGAACTGCTCCCAGACAATAACATTGGTTTCTAATTCGAACTTGGAACAAACTTTGCCACAGGAAGGATCTGAAGTTAATAATAATTTGGCTCCGCAGAGCGATGGGCTACCTGTGAAGAGCAGCTTCCAATATGGAGAGAAGGAAAGGGATCGCTTTAACAGCATCCTGAAGCAGTTTGTTGGGACGCATAATTTCCACAATTTCACGACCCGCATTAAAGCAGAAGATCCAGCTGCAAATCGGTACATTCTGTCATTTGAGGCCAGTGATGTTTTTACCATTAACGGCATGGATTTTGTGAAATGCACAATTGTTGGTCAGAGTTTTGTGCTTCACCAGATACGGAAAATGATAGGCCTGGCTGTTGCAGTGATGCGAAATTGTGCGCCTGAGTCCATAATAGCCAGAGCTCTAAGAAAGGATGTGAATATGAATGTGCCCACAGCTCCCGAGTTAGGGTTGTTTTTGGACGAGAGCTTTTTCCCTGCTTACAACCAGAAATGGCAAGCTACGCACGAGGATGTCTCTTTGAAAGAATTTGCGCAGCAAATAGTTGAGTTCAAGCAGAAGTATATTTATACTCACATAGCATCCACTGAAGTTAAGGATGGGGTAGTAGCCCTTTGGTTGCATTCGCTTAATCAGCGGAACTACCTAGAGTTTGCTGGTGAAAGGGAAGCAGAAAATGTTCAGAATGGGGCAGAACCTCTTTCACTTAAAGAAAACATGGCTGACATGGAAGTGCTTGCAAATTAATTTATACCTATTACCAAGGCAAACTAGGCAAAGTAAAATGATGAGATTGCAAACCTATCTAAATGGGGAAGCGGAAAATTATAAAGAAGTTAAGCATTGGTTGTACGTTTTTTTGGCCAGACTGTTGTTTACTTCACACTGCAACCATGCATATGAGTTCCATTATAATCATGATCAGACATTAGTGAACATGTGAGTCATTTCAGGAATGTCTTTGTTGTAGGTATTTGGAGTAAAAGATGTTGATTTTTGAAGAAGAGTATTGTAAACACATCTGAAGAGTGATATTTTCCCTTGGCCATGGATATTTTAACATCTACTGGCGCAACATCTACACCCACCCCCCACAGCTTAAGCTCATTGTTTCTAACATACATGAGCTGCATGTGAAAAATGAATGAACTGCTGGAATCATTTACTATAATAATGCATAAGAGTGCGGTACAGAATGTTATTTTGTTTTGATATGGAACTATTTACTTCATGTTGTATATTT

Ace file of the UniGene sp_v3.0_unigene3495 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	tRNA pseudouridine synthase family protein n=1 Tax=Cucumis melo subsp. melo RepID=E5GCD2_CUCME	-	-	0.0	55%
FL-Next	sp=Pseudouridine synthase; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	38%
Sma3	Pseudouridylate synthase	-	-	3.099e-12	-

Source	ECs	Term	Type	e value	Identity
Sma3	Isomerases, Intramolecular transferases (mutases), Transferring other groups.	EC:5.4.99.-	-	1.684e-11	-

Source	Gene names
Sma3	At1g20370; At1g76120; F14O10.3; GSVIVT00015530001; MICPUCDRAFT_3609; MICPUN_69585; OJ1725_H08.16; OSTLU_2261; Os02g0668400; OsI_08404; OsJ_07867; P0684A08.2; PHYPADRAFT_197512; POPTRDRAFT_206573; POPTRDRAFT_815980; RCOM_1508890; RCOM_1599840; VITISV_03184

Source	GOs	Term	Type	Identity
Sma3	pseudouridine synthase activity	GO:0009982	Molecular Function	-
Sma3	pseudouridine synthesis	GO:0001522	Biological Process	-
Sma3	tRNA processing	GO:0008033	Biological Process	-

Source	InterPros	Term	Type	e value	Identity
Sma3	Pseudouridine synthase I, TruA	IPR001406	-	0.0	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G20370.1	Pseudouridine synthase family protein chr1:7051846-7053588 REVERSE LENGTH=549	48%
RefSeq	Arabidopsis thaliana	NP_564112.1	pseudouridine synthase-like protein [Arabidopsis thaliana]	48%
RefSeq	Populus trichocarpa	XP_002307759.1	predicted protein, partial [Populus trichocarpa]	51%

Full-Lengther Next Prediction

Fln status: Putative Complete

Fln database: coniferopsida.fasta

Fln subject: A9P2G1

Fln msg: Unexpected STOP codon in 5 prime region, your sequence is longer than subject: 565 - 212

Fln protein: KTPDIEEEENATKVAKITKEEDGVEETREEGVGPRHPKPKRRKIAIFVAYCGVGYQGMQRNPGAKTIEGDLEEALFKAGAISEDQYGDPRKVDWMRSARTDKGVSAVGQVVSGRFFIDPPGLVERVNSHLPEQIRVLGYKRVTASFSAKKFCDRRRYEYVIPLFALDPSAHRDRESVLASEGKEGALIKCLECSERGRKVPGLMGKKNEHGKELEAVNNGDLNETTLTEHEQIEKIVDMQNSEKSALQQNGSVTENGDASCDKNPNVETTALVSELNLEKAVRQGVSELENSSLGPAPEPAHAILEKNPNEGLNCSQTITLVSNSNLEQTLPQEGSEVNNNLAPQSDGLPVKSSFQYGEKERDRFNSILKQFVGTHNFHNFTTRIKAEDPAANRYILSFEASDVFTINGMDFVKCTIVGQSFVLHQIRKMIGLAVAVMRNCAPESIIARALRKDVNMNVPTAPELGLFLDESFFPAYNQKWQATHEDVSLKEFAQQIVEFKQKYIYTHIASTEVKDGVVALWLHSLNQRNYLEFAGEREAENVQNGAEPLSLKENMADMEVLAN*

Protein Length: 566

Fln nts: ACGGCACAATCGTAACCCCATCTTAAAGTGTCCTTATAAACCCGAAGCCATTTCCATTCCATGTTGAGCAGAAGAAAAAGGCATATACCCTGCACAGTGAGCAAACGAACAATAAACAATATTGACATCTGAGTATCAATGGAAAATGAGCAAACTCGTTCAGATAAAGGTCCGGAGAATTCCATTACCATTCTTGAGAACTCCAGTTTCAAAACAAATGAAGAAAAACCCACAGTTGCAGAGGAAAATCCCACTTCTGTGGTGGAGGATGCAGTTGTGGCAAGAACTGATGAGACCATAAACATCCACATCAGTGAAAGCTCAGGACAAGCTGATGCCCTAGCAGCTATTCAAGATTCATGCTCGGGATCTCCTCCCACAGCAGATGCACTGAACCCAAATAGGAAAAGGCCCAGAGACCAGCCAGAAATGGCCAAGCCTGAACAACCACCAAATACAGAGGTAGAAATGGCTGAAAAACACCAGATATAGAAGAAGAAGAAAATGCTACAAAGGTCGCAAAGATCACCAAAGAAGAAGATGGTGTAGAGGAAACGAGAGAAGAAGGGGTTGGCCCACGACATCCAAAGCCCAAGAGGAGGAAAATAGCCATTTTTGTCGCATATTGTGGCGTTGGGTATCAGGGGATGCAGAGGAATCCAGGGGCTAAAACAATAGAGGGTGATTTGGAGGAGGCTTTGTTCAAGGCGGGAGCAATCTCAGAAGACCAGTATGGGGACCCCAGGAAAGTGGATTGGATGAGGTCTGCCAGAACAGACAAGGGGGTAAGTGCTGTTGGTCAGGTGGTTTCTGGGAGATTTTTCATAGACCCACCAGGGCTTGTGGAGAGAGTCAATTCCCACCTCCCAGAGCAGATTAGGGTGCTTGGATACAAGAGGGTGACTGCATCATTCAGTGCCAAGAAGTTCTGTGACAGAAGAAGGTATGAATATGTTATCCCTCTTTTTGCTTTGGATCCTTCTGCTCATAGGGATAGGGAGAGTGTTTTGGCTAGTGAAGGCAAGGAGGGTGCTCTAATCAAATGCTTAGAGTGCTCTGAGAGAGGCAGGAAGGTCCCTGGGCTCATGGGTAAAAAAAACGAACATGGCAAGGAGTTGGAAGCGGTGAATAATGGTGATTTGAATGAGACAACGTTGACAGAACATGAACAGATAGAAAAGATTGTAGATATGCAAAATTCAGAAAAATCTGCCCTACAGCAAAATGGATCGGTCACAGAAAATGGTGATGCCAGTTGTGACAAGAACCCAAATGTGGAGACAACAGCATTGGTTTCCGAGTTGAATTTGGAAAAAGCTGTTCGCCAAGGAGTGTCTGAACTTGAGAACAGTTCACTAGGGCCAGCTCCTGAACCTGCCCATGCCATCCTTGAGAAGAACCCAAATGAAGGATTGAACTGCTCCCAGACAATAACATTGGTTTCTAATTCGAACTTGGAACAAACTTTGCCACAGGAAGGATCTGAAGTTAATAATAATTTGGCTCCGCAGAGCGATGGGCTACCTGTGAAGAGCAGCTTCCAATATGGAGAGAAGGAAAGGGATCGCTTTAACAGCATCCTGAAGCAGTTTGTTGGGACGCATAATTTCCACAATTTCACGACCCGCATTAAAGCAGAAGATCCAGCTGCAAATCGGTACATTCTGTCATTTGAGGCCAGTGATGTTTTTACCATTAACGGCATGGATTTTGTGAAATGCACAATTGTTGGTCAGAGTTTTGTGCTTCACCAGATACGGAAAATGATAGGCCTGGCTGTTGCAGTGATGCGAAATTGTGCGCCTGAGTCCATAATAGCCAGAGCTCTAAGAAAGGATGTGAATATGAATGTGCCCACAGCTCCCGAGTTAGGGTTGTTTTTGGACGAGAGCTTTTTCCCTGCTTACAACCAGAAATGGCAAGCTACGCACGAGGATGTCTCTTTGAAAGAATTTGCGCAGCAAATAGTTGAGTTCAAGCAGAAGTATATTTATACTCACATAGCATCCACTGAAGTTAAGGATGGGGTAGTAGCCCTTTGGTTGCATTCGCTTAATCAGCGGAACTACCTAGAGTTTGCTGGTGAAAGGGAAGCAGAAAATGTTCAGAATGGGGCAGAACCTCTTTCACTTAAAGAAAACATGGCTGACATGGAAGTGCTTGCAAATTAA___TTTATACCTATTACCAAGGCAAACTAGGCAAAGTAAAATGATGAGATTGCAAACCTATCTAAATGGGGAAGCGGAAAATTATAAAGAAGTTAAGCATTGGTTGTACGTTTTTTTGGCCAGACTGTTGTTTACTTCACACTGCAACCATGCATATGAGTTCCATTATAATCATGATCAGACATTAGTGAACATGTGAGTCATTTCAGGAATGTCTTTGTTGTAGGTATTTGGAGTAAAAGATGTTGATTTTTGAAGAAGAGTATTGTAAACACATCTGAAGAGTGATATTTTCCCTTGGCCATGGATATTTTAACATCTACTGGCGCAACATCTACACCCACCCCCCACAGCTTAAGCTCATTGTTTCTAACATACATGAGCTGCATGTGAAAAATGAATGAACTGCTGGAATCATTTACTATAATAATGCATAAGAGTGCGGTACAGAATGTTATTTTGTTTTGATATGGAACTATTTACTTCATGTTGTATATTT

Fln Alignment:

Contig3495___RRKIAIFVAYCGVGYQGMQ---RNPGAKTIEGDLEEALFKAGAISEDQYGDPRKVDWMRSARTDKGVSAVGQVVS-------GRFFIDPPG--LVERVNSHLPEQIRV
A9P2G1______________KRKVAMRIGYVGTNYRGLQIQRDSASTITIEDELEKAILKAGGMLESNYGNLHKLGWRRSSRTDKGVHSLATVIAMKMEIPDGAWEEDPDGIALADVINRHLPYNIRI

SNPs (tot: 20)

Position	A %	C %	G %	T %	Probability
136	75	25			0.996473
414	33	66			0.997452
415	33			66	0.997452
417			33	66	0.997452
418	66			33	0.997452
495		20		80	0.995493
539			16	83	0.994512
548			83	16	0.994512
739	12			87	0.992554
2287	18	81			0.999994
2292	18		81		0.999994
2424	10		90		0.90298
2425		10	90		0.90298
2437	11	88			0.923564
2463			12	87	0.992554
2464		12		87	0.992554
2465		12	87		0.992554
2544		83	16		1.0
2592			13	86	1.0
2615	25		75		0.996473

SSRs (tot: 1)

Start position	End position	Sequence	Length
2165	2177	TTC TTC TTC TTC T	13

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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