SustainPineDB

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene2018

Length: 1977 nt

Origin of reads: Inia v1 Biogeco1 v2 Biogeco3 v1 Uma v2

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

UniGene Fasta (sense)

>sp_v2.0_unigene2018
TTATCTTTCCGCGAATAAAGTGGCCCCTGCACACGAGGGGGTGGAGCTTGGAATTGGGGATGCTTCCATTATTAAAGCCCTTGCGGAGGCTTTTGGGAGAAAGGAAGCCCAGGTCAAGACCCAGATGAAGTCCTTGGGTGACTTGGGTCTTGTTGCAAAGGCAAGTCGTTCAACTCAGATGTTGATGGTCAAGCCAACTCCTTTAACTTGTGTAAAGGTTCTTGAATGCTTTCGTTTCATTGCTAAGGAATCTGGGAAGGAAAGTCAAGACAAGAAGAGGGCACACATAAAGTCTCTTCTTGTAGCAGCAACAGACTGTGAACCCCAGTACTTGGTTCGCCTTCTTCAGGCAAAAATGCGTATAGGATTGGCAGAACAAACTGTCTTAGTTGCATTGGGATATGCAGCTGTGTATTCTGATGAGCTGCCAGTTGCCCAGTCCCGACTTGAAGAGGCTGGCAGGATAGTGAAGCAAGTTTACTCAGTCTTGCCAATATATGATAAAATTGTTCCGGTTTTGCTTGATGTGGGTGTTGTCAAGTTGCCTGAAGTTTGTACATTTACCTTGGGGGTGCCTATTGGTCCTATGTTGGCCAAACCTACGAAAGGAGTTTCGGAGATTTTGGATAAATTTCAGGATATAAAGTTTACTTGTGAGTATAAATATGATGGGGAGCGTGCACAGATTCACTACATGGAAGATGGGTCTGTTGAGATTTACAGTCGGAATGCTGAACGCAATACTGGGAAGTTTCCAGATATTGTAGATTTTATTGGAAGATGCAAGAAGCCATCTGCGAAATCATTTGTTTTGGATACTGAAGTTGTTGCATTTGATCGGGAGAAGCAAAAAATCTTACCTTTCCAGGTTTTGAGCACTCGTGCCCGAAAAGGTGTTATAGTTAGTGACATCAAAGTGCAAGTTTGTATTTTTGCTTTTGACCTTTTATATCTTAATGACAGACAACTTTTACAAGAACAACTAAAAGTGCGAAGAGAGTTCTTGTATGATTCTTTTCAAGAGGAAGCAGGAAAATTCCAATTTGCAACTGCAACGGAATCAAATGATATAGAAGAAATGCAGAAATTTCTTCAAGAAGCTGTAAACAGTAGTTGTGAAGGTTTAATTATCAAAACACTGGAGCAAGATGCAACATATGAGCCTGCAAAGCGGTCTAATAACTGGTTGAAGTTGAAGAAAGATTATATGGACAGTATTGGGGATTCATTAGATCTTGTACCAATAGGGGCATTCCATGGTCGTGGAAAGCGTACAGGAGTTTATGGTGCTTTTCTTCTTGCGTGCTATGATGAAGATACAGAAGAGTTTCAAAGTGTGTGTAAAATAGGCACAGGATTTACTGAAGTAATGCTTGAAGAGCGTTCTGACAGTTTGCGGAATAAAGTCATCCCAAAGCCAAAGCCTTATTATCGCTATGGAGAGACATTAGGAGTAGATGTTTGGTTTGAGCCTTCAGAGGTATGGGAGGTCAAAGCTGCTGATTTAAGCATTAGCCCTGTTCATCGTGCAGCAGCTGGTGTGGTTGATCCTAACAAGGGTATTTCTCTTCGATTTCCACGTTTACTACGGGTTCGTGAAGACAAGAATCCAGATCAAGCGACTACTGCAGAGCAGGTCGCAGAAATGTATCGGGCCCAAAAAATTAACCATGCAGGAAATCATGGGGATGAAGACAATGACTGAAAGAGAATACAGCTACACTGTTAGCCTCGAGGAAAGTTACATTTTCGCAGTAATAATCTCTTGTTTGTCTTCCTGCCACTTCAATGTCAATATACTTTGTATTAAATGACAGCTATATTTTTCCAAATGTCCATTGTATTATAATTGAGTCTCGTAAATGCAATTTATATATGTAACTTTATTAAACAATTTAGATAGACTGTATGAAGGGAAGTAATCTGGCATTCATTTTAGTTCATGATAAACACAACGTGATGAACCAAACATACCTT

Ace file of the UniGene sp_v2.0_unigene2018 (antisense)

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	DNA ligase n=5 Tax=Poaceae RepID=Q7XD67_ORYSJ	-	-	75%
FL-Next	sp=DNA ligase 1; Arabidopsis thaliana (Mouse-ear cress).	-	-	72%
Blast2go	dna ligase	-	-	83%

Source	ECs	Term	Type	e value	Identity
Blast2go	DNA ligase (ATP).	EC:6.5.1.1	-	0.0	83%

Source	GOs	Term	Type	Identity
Blast2go	DNA replication	GO:0006260	Biological Process	83%
Blast2go	DNA ligation involved in DNA repair	GO:0051103	Biological Process	83%
Blast2go	DNA recombination	GO:0006310	Biological Process	83%
Blast2go	DNA binding	GO:0003677	Molecular Function	83%
Blast2go	ATP binding	GO:0005524	Molecular Function	83%
Blast2go	DNA ligase (ATP) activity	GO:0003910	Molecular Function	83%
Blast2go	nucleus	GO:0005634	Cellular Component	83%
Blast2go	plastid	GO:0009536	Cellular Component	83%
Blast2go	mitochondrion	GO:0005739	Cellular Component	83%

Source	InterPros	Term	Type	Identity
Sma3	DNA ligase, ATP-dependent	IPR000977	-	-
Sma3	DNA repair metallo-beta-lactamase	IPR011084	-	-
Sma3	DNA ligase, ATP-dependent, N-terminal	IPR012308	-	-
Sma3	DNA ligase, ATP-dependent, C-terminal	IPR012309	-	-
Sma3	DNA ligase, ATP-dependent, central	IPR012310	-	-
Sma3	Nucleic acid-binding, OB-fold	IPR012340	-	-
Sma3	DNA ligase, ATP-dependent, conserved site	IPR016059	-	-
Sma3	Beta-ketoacyl synthase, active site	IPR018201	-	-

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: sp_plants

Fln subject: Q42572

Fln msg: your sequence is shorter than subject: 568 - 790

Fln protein: YLSANKVAPAHEGVELGIGDASIIKALAEAFGRKEAQVKTQMKSLGDLGLVAKASRSTQMLMVKPTPLTCVKVLECFRFIAKESGKESQDKKRAHIKSLLVAATDCEPQYLVRLLQAKMRIGLAEQTVLVALGYAAVYSDELPVAQSRLEEAGRIVKQVYSVLPIYDKIVPVLLDVGVVKLPEVCTFTLGVPIGPMLAKPTKGVSEILDKFQDIKFTCEYKYDGERAQIHYMEDGSVEIYSRNAERNTGKFPDIVDFIGRCKKPSAKSFVLDTEVVAFDREKQKILPFQVLSTRARKGVIVSDIKVQVCIFAFDLLYLNDRQLLQEQLKVRREFLYDSFQEEAGKFQFATATESNDIEEMQKFLQEAVNSSCEGLIIKTLEQDATYEPAKRSNNWLKLKKDYMDSIGDSLDLVPIGAFHGRGKRTGVYGAFLLACYDEDTEEFQSVCKIGTGFTEVMLEERSDSLRNKVIPKPKPYYRYGETLGVDVWFEPSEVWEVKAADLSISPVHRAAAGVVDPNKGISLRFPRLLRVREDKNPDQATTAEQVAEMYRAQKINHAGNHGDEDND*

Protein Length: 569

Fln nts: TTATCTTTCCGCGAATAAAGTGGCCCCTGCACACGAGGGGGTGGAGCTTGGAATTGGGGATGCTTCCATTATTAAAGCCCTTGCGGAGGCTTTTGGGAGAAAGGAAGCCCAGGTCAAGACCCAGATGAAGTCCTTGGGTGACTTGGGTCTTGTTGCAAAGGCAAGTCGTTCAACTCAGATGTTGATGGTCAAGCCAACTCCTTTAACTTGTGTAAAGGTTCTTGAATGCTTTCGTTTCATTGCTAAGGAATCTGGGAAGGAAAGTCAAGACAAGAAGAGGGCACACATAAAGTCTCTTCTTGTAGCAGCAACAGACTGTGAACCCCAGTACTTGGTTCGCCTTCTTCAGGCAAAAATGCGTATAGGATTGGCAGAACAAACTGTCTTAGTTGCATTGGGATATGCAGCTGTGTATTCTGATGAGCTGCCAGTTGCCCAGTCCCGACTTGAAGAGGCTGGCAGGATAGTGAAGCAAGTTTACTCAGTCTTGCCAATATATGATAAAATTGTTCCGGTTTTGCTTGATGTGGGTGTTGTCAAGTTGCCTGAAGTTTGTACATTTACCTTGGGGGTGCCTATTGGTCCTATGTTGGCCAAACCTACGAAAGGAGTTTCGGAGATTTTGGATAAATTTCAGGATATAAAGTTTACTTGTGAGTATAAATATGATGGGGAGCGTGCACAGATTCACTACATGGAAGATGGGTCTGTTGAGATTTACAGTCGGAATGCTGAACGCAATACTGGGAAGTTTCCAGATATTGTAGATTTTATTGGAAGATGCAAGAAGCCATCTGCGAAATCATTTGTTTTGGATACTGAAGTTGTTGCATTTGATCGGGAGAAGCAAAAAATCTTACCTTTCCAGGTTTTGAGCACTCGTGCCCGAAAAGGTGTTATAGTTAGTGACATCAAAGTGCAAGTTTGTATTTTTGCTTTTGACCTTTTATATCTTAATGACAGACAACTTTTACAAGAACAACTAAAAGTGCGAAGAGAGTTCTTGTATGATTCTTTTCAAGAGGAAGCAGGAAAATTCCAATTTGCAACTGCAACGGAATCAAATGATATAGAAGAAATGCAGAAATTTCTTCAAGAAGCTGTAAACAGTAGTTGTGAAGGTTTAATTATCAAAACACTGGAGCAAGATGCAACATATGAGCCTGCAAAGCGGTCTAATAACTGGTTGAAGTTGAAGAAAGATTATATGGACAGTATTGGGGATTCATTAGATCTTGTACCAATAGGGGCATTCCATGGTCGTGGAAAGCGTACAGGAGTTTATGGTGCTTTTCTTCTTGCGTGCTATGATGAAGATACAGAAGAGTTTCAAAGTGTGTGTAAAATAGGCACAGGATTTACTGAAGTAATGCTTGAAGAGCGTTCTGACAGTTTGCGGAATAAAGTCATCCCAAAGCCAAAGCCTTATTATCGCTATGGAGAGACATTAGGAGTAGATGTTTGGTTTGAGCCTTCAGAGGTATGGGAGGTCAAAGCTGCTGATTTAAGCATTAGCCCTGTTCATCGTGCAGCAGCTGGTGTGGTTGATCCTAACAAGGGTATTTCTCTTCGATTTCCACGTTTACTACGGGTTCGTGAAGACAAGAATCCAGATCAAGCGACTACTGCAGAGCAGGTCGCAGAAATGTATCGGGCCCAAAAAATTAACCATGCAGGAAATCATGGGGATGAAGACAATGACTGA___AAGAGAATACAGCTACACTGTTAGCCTCGAGGAAAGTTACATTTTCGCAGTAATAATCTCTTGTTTGTCTTCCTGCCACTTCAATGTCAATATACTTTGTATTAAATGACAGCTATATTTTTCCAAATGTCCATTGTATTATAATTGAGTCTCGTAAATGCAATTTATATATGTAACTTTATTAAACAATTTAGATAGACTGTATGAAGGGAAGTAATCTGGCATTCATTTTAGTTCATGATAAACACAACGTGATGAACCAAACATACCTT

Fln Alignment:

Contig2018___YLSANKVAPAHEGVELGIGDASIIKALAEAFGRKEAQVKTQMKSLGDLGLVAKASRSTQMLMVKPTPLTCVKVLECFRFIAKESGKESQDKKRAHIKSLLVAATDCEPQYLVRLLQAKMRIGLAEQTVLVALGYAAVYSDEL----PVAQSRLEEAGRIVKQVYSVLPIYDKIVPVLLDVGVVKLPEVCTFTLGVPIGPMLAKPTKGVSEILDKFQDIKFTCEYKYDGERAQIHYMEDGSVEIYSRNAERNTGKFPDIVDFIGRCKKPSAKSFVLDTEVVAFDREKQKILPFQVLSTRARKGVIVSDIKVQVCIFAFDLLYLNDRQLLQEQLKVRREFLYDSFQEEAGKFQFATATESNDIEEMQKFLQEAVNSSCEGLIIKTLEQDATYEPAKRSNNWLKLKKDYMDSIGDSLDLVPIGAFHGRGKRTGVYGAFLLACYDEDTEEFQSVCKIGTGFTEVMLEERSDSLRNKVIPKPKPYYRYGETLGVDVWFEPSEVWEVKAADLSISPVHRAAAGVVDPNKGISLRFPRLLRVREDKNPDQATTAEQVAEMYRAQKINHAGNH--GDED
Q42572______________YLSANEIAPAHEGVELGIGESTIIKAISEAFGRTEDHVKKQNTELGDLGLVAKGSRSTQTMMFKPEPLTVVKVFDTFRQIAKESGKDSNEKKKNRMKALLVATTDCEPLYLTRLLQAKLRLGFSGQTVLAALGQAAVYNEEHSKPPPNTKSPLEEAAKIVKQVFTVLPVYDIIVPALLSGGVWNLPKTCNFTLGVPIGPMLAKPTKGVAEILNKFQDIVFTCEYKYDGERAQIHFMEDGTFEIYSRNAERNTGKYPDVALALSRLKKPSVKSFILDCEVVAFDREKKKILPFQILSTRARKNVNVNDIKVGVCIFAFDMLYLNGQQLIQENLKIRREKLYESFEEDPGYFQFATAVTSNDIDEIQKFLDASVDVGCEGLIIKTLDSDATYEPAKRSNNWLKLKKDYMDSIGDSVDLVPIAAFHGRGKRTGVYGAFLLACYDVDKEEFQSICKIGTGFSDAMLDERSSSLRSQVIATPKQYYRVGDSLNPDVWFEPTEVWEVKAADLTISPVHRAATGIVDPDKGISLRFPRLLRVREDKKPEEATSSEQIADLYQAQKHNHPSNEVKGDDD

SNPs (tot: 15)

Position	A %	C %	G %	T %	Probability
1070		83		16	0.994512
1383			85	14	0.993533
1388	85		14		0.993533
1554		77		22	0.999999
1584		22		77	0.999999
1652			88	11	0.923564
1693		42		57	1.0
1738	85			14	0.993533
1761	16	83			0.994512
1790	40	60			1.0
1798	60	40			1.0
1803	20	20	60		0.99255
1804	20	20	20		0.994159
1805	60	20	20		0.99255
1807	20			80	0.995493

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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