SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene430

Length: 2856 nt

UniGene Fasta

>sp_v3.0_unigene430
TGATACCACTGCTTAAGCAGTGGTATCAACGCAGAGTACGCGGGGGCCAAGAAGGCCGTCGTAGCCAAAGAGGCCGAACAGGGCGCTGTAGCTGCTCCGTCCGTTGACGATAAGATTGCCCAGCTCTTGAAGAAGGCCTCCGAGTTCGAACCCAAGGCCGCCGCTTTCTGGAAGGACGGCGAGCACGTTCCCTTCCTGTTTCTTGCCCGAGCCCTAGACTTGATATCCAACGAATCTGGAAGAATCGCCATCACAGAGATTTTGTGCAATGTGTTTCGAACCGTGATCGCCACGACGCCGGGCGATTTGGTGTCAGTGGTTTATCTTTCCGCGAATAAAGTGGCCCCTGCACACGAGGGGGTGGAGCTTGGAATTGGGGATGCTTCCATTATTAAAGCCCTTGCGGAGGCTTTTGGGAGAAAGGAAGCCCAGGTCAAGAGCCAGATGAAGTCCTTGGGTGACTTGGGTCTTGTTGCAAAGGCAAGTCGTTCAACTCAGATGTTGATGGTCAAGCCAACTCCTTTAACTTGTGTAAAGGTTCTTGAATGCTTTCGTTTCATTGCTAAGGAATCTGGGAAGGAAAGTCAAGACAAGAAGAGGGCACACATAAAGTCTCTTCTTGTAGCAGCAACAGACTGTGAACCCCAGTACTTGGTTCGCCTTCTTCAGGCAAAAATGCGTATAGGATTGGCAGAACAAACTGTCTTAGTTGCATTGGGATATGCAGCTGTGTATTCTGATGAACTGCCAGTTGCCCAGTCCCGACTTGAAGAGGCTGGCAGGATAGTGAAGCAAGTTTACTCAGTCTTGCCAATATATGATAAAATTGTTCCGGTTTTGCTTGATGTGGGTGTTGTCAAGTTGCCTGAAGTTTGTACATTTACCTTGGGGGTGCCTATTGGTCCTATGTTGGCCAAACCTACGAAAGGAGTTTCGGAGATTTTGGATAAATTTCAGGATATAAAGTTTACTTGTGAGTATAAATATGATGGGGAGCGTGCACAGATTCACTACATGGAAGATGGGTCTGTTGAGATTTACAGTCGGAATGCTGAACGCAATACTGGGAAGTTTCCAGATATTGTAGATTTTATTGGAAGATGCAAGAAGCCATCTGCGAAATCATTTGTTTTGGATACTGAAGTTGTTGCATTTGATCGGGAGAAGCAAAAAATCTTACCTTTCCAGGTTTTGAGCACTCGTGCCCGAAAAGGTGTTATAGTTAGTGACATCAAAGTGCAAGTTTGTATTTTTGCTTTTGACCTTTTATATCTTAATGACAGACAACTTTTACAAGAACAACTAAAAGTGCGAAGAGAGTTCTTGTATGATTCTTTTCAAGAGGAAGCAGGAAAATTCCAATTTGCAACTGCAACGGAATCAAATGATATAGAAGAAATGCAGAAATTTCTTCAAGAAGCTGTAAACAGTAGTTGTGAAGGTTTAATTATCAAAACACTGGAGCAAGATGCAACATATGAGCCTGCAAAGCGGTCTAATAACTGGTTGAAGTTGAAGAAAGATTATATGGACAGTATTGGGGATTCATTAGATCTTGTACCAATAGGGGCATTCCATGGTCGTGGAAAGCGTACAGGGGTTTATGGTGCTTTTCTTCTTGCATGCTATGATGAAGATACAGAAGAGTTTCAAAGTGTGTGTAAAATAGGCACAGGATTTACTGAAATAATGCTTGAAGAGCGTTCTGACAGTTTGCGGAATAAAGTCATCCCAAAGCCAAAGCCTTATTATCGCTATGGAGAGACATTAGGAGTAGATGTTTGGTTTGAGCCTTCAGAGGTATGGGAGGTCAAAGCTGCTGATTTAAGCATTAGCCCTGTTCATCGTGCAGCAGCTGGTGTGGTTGATCCTAACAAGGGTATTTCTCTTCGATTTCCACGTTTACTACGGGTTCGTGAAGACAAGAATCCAGATCAAGCGACTACTGCAGAGCAGGTCGCAGAAATGTATCGGGCCCAAAAAATTAACCATGCAGGAAATCATGGGGATGAAGACAATGACTGAAAGAGAATACAGCTACACTGTTAGCCTCGAGTGTACAGGTTAGTGACCACCACAGGCATTGGCAGTCGTTTGGAATGGGATAGCATGCTTGGCCACATCGAGAGCACCGTTTTTACAAGGAAAAAGTTTCCTTTTGGCTAACAATCTGTTTAAAACGATGAGCTTCTTGGTAATATTGATCATGTTTTCTTAACGTGATTACTAAATGCCATGAAAGATGTTTTAATTTGGTACTTTGTCTTGGTATTCAATTCATATAGTATAGTTTACAAGGATTATCCCAGCTTATAACAAGAACATGTTATAAGTGGTTTTTTGTAATTGTTGTTTTCAGTGAACACATTAAGCATCTATGGCGTTAAATTTTTATAGATCAAGTAGCGTAGTGATAGCAGATCGATGCATGAGGTTCTAATGACGGATGGCCTGGTTTTGACTCGGTTCCCAATCGTGGAGCTTTCAACCATTATGTTTTTAGATCAGAAGCTCATGTAATTATTTTATAATTCTATTAGTAATAATTTATTACTGATGATATGACTCGCTCATTGTGGCAGTCTAGATTTAACAGTTGACAATTTGTCATGACTAGCCATTCCAATTTTGATCGACAAGATTTTTATTAAAGCAGTGCTTCAATTATCATGTGCATGTGCAAAGGAAATGAAAGACCTTGGTGTGGGCACATGCTAAATTTTTGTTTGTAGAGTATGGAATTGTATGAAAAGCACAGGTATTTCAGGACAAGATTAGGTGGAAGGTTAACTATAATGTATATTTACTGTTTTCTTCACAAGATTATGAACGTTATTAAAAGATCTATTCTTTTCT

Ace file of the UniGene sp_v3.0_unigene430

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	DNA ligase n=5 Tax=Poaceae RepID=Q7XD67_ORYSJ	-	-	0.0	75%
FL-Next	Isoform 3 of DNA ligase 1 OS=Arabidopsis thaliana GN=LIG1	-	-	0.0	71%
Sma3	DNA ligase	-	-	2.014e-40	-

Source	ECs	Term	Type	e value	Identity
Sma3	DNA ligase (ATP).	EC:6.5.1.1	-	2.8026e-45	-

Source	Gene names
Sma3	At1g08130; At1g08130/T6D22_10; At1g49250; B1288B10.3; CHLREDRAFT_133143; CHLREDRAFT_176829; GSVIVT00006288001; GSVIVT00022150001; LIG1; LOC_Os10g34750; Lig1; MICPUCDRAFT_16166; MICPUN_78711; OSJNBb0049A16.5; OSTLU_16988; Os01g0685500; Os10g0489200; OsI_34

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	mitochondrion	GO:0005739	Cellular Component	-
Sma3	magnesium ion binding	GO:0000287	Molecular Function	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	DNA ligase (ATP) activity	GO:0003910	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	DNA replication	GO:0006260	Biological Process	-
Sma3	DNA repair	GO:0006281	Biological Process	-
Sma3	DNA recombination	GO:0006310	Biological Process	-
Sma3	cell cycle	GO:0007049	Biological Process	-
Sma3	cell division	GO:0051301	Biological Process	-

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	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G08130.1	ATLIG1, LIG1 DNA ligase 1 chr1:2542913-2547815 REVERSE LENGTH=790	71%
RefSeq	Arabidopsis thaliana	NP_172293.2	DNA ligase 1 [Arabidopsis thaliana]	71%
RefSeq	Populus trichocarpa	XP_002314303.1	predicted protein [Populus trichocarpa]	73%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: sp_plants

Fln subject: Q42572-3

Fln msg: Unexpected stop codon in the beginning of your sequence, your sequence is shorter than subject: 675 - 731

Fln protein: *YHCLSSGINAEYAGAKKAVVAKEAEQGAVAAPSVDDKIAQLLKKASEFEPKAAAFWKDGEHVPFLFLARALDLISNESGRIAITEILCNVFRTVIATTPGDLVSVVYLSANKVAPAHEGVELGIGDASIIKALAEAFGRKEAQVKSQMKSLGDLGLVAKASRSTQMLMVKPTPLTCVKVLECFRFIAKESGKESQDKKRAHIKSLLVAATDCEPQYLVRLLQAKMRIGLAEQTVLVALGYAAVYSDELPVAQSRLEEAGRIVKQVYSVLPIYDKIVPVLLDVGVVKLPEVCTFTLGVPIGPMLAKPTKGVSEILDKFQDIKFTCEYKYDGERAQIHYMEDGSVEIYSRNAERNTGKFPDIVDFIGRCKKPSAKSFVLDTEVVAFDREKQKILPFQVLSTRARKGVIVSDIKVQVCIFAFDLLYLNDRQLLQEQLKVRREFLYDSFQEEAGKFQFATATESNDIEEMQKFLQEAVNSSCEGLIIKTLEQDATYEPAKRSNNWLKLKKDYMDSIGDSLDLVPIGAFHGRGKRTGVYGAFLLACYDEDTEEFQSVCKIGTGFTEIMLEERSDSLRNKVIPKPKPYYRYGETLGVDVWFEPSEVWEVKAADLSISPVHRAAAGVVDPNKGISLRFPRLLRVREDKNPDQATTAEQVAEMYRAQKINHAGNHGDEDND*

Protein Length: 676

Fln nts: TGATACCACTGCTTAAGCAGTGGTATCAACGCAGAGTACGCGGGGGCCAAGAAGGCCGTCGTAGCCAAAGAGGCCGAACAGGGCGCTGTAGCTGCTCCGTCCGTTGACGATAAGATTGCCCAGCTCTTGAAGAAGGCCTCCGAGTTCGAACCCAAGGCCGCCGCTTTCTGGAAGGACGGCGAGCACGTTCCCTTCCTGTTTCTTGCCCGAGCCCTAGACTTGATATCCAACGAATCTGGAAGAATCGCCATCACAGAGATTTTGTGCAATGTGTTTCGAACCGTGATCGCCACGACGCCGGGCGATTTGGTGTCAGTGGTTTATCTTTCCGCGAATAAAGTGGCCCCTGCACACGAGGGGGTGGAGCTTGGAATTGGGGATGCTTCCATTATTAAAGCCCTTGCGGAGGCTTTTGGGAGAAAGGAAGCCCAGGTCAAGAGCCAGATGAAGTCCTTGGGTGACTTGGGTCTTGTTGCAAAGGCAAGTCGTTCAACTCAGATGTTGATGGTCAAGCCAACTCCTTTAACTTGTGTAAAGGTTCTTGAATGCTTTCGTTTCATTGCTAAGGAATCTGGGAAGGAAAGTCAAGACAAGAAGAGGGCACACATAAAGTCTCTTCTTGTAGCAGCAACAGACTGTGAACCCCAGTACTTGGTTCGCCTTCTTCAGGCAAAAATGCGTATAGGATTGGCAGAACAAACTGTCTTAGTTGCATTGGGATATGCAGCTGTGTATTCTGATGAACTGCCAGTTGCCCAGTCCCGACTTGAAGAGGCTGGCAGGATAGTGAAGCAAGTTTACTCAGTCTTGCCAATATATGATAAAATTGTTCCGGTTTTGCTTGATGTGGGTGTTGTCAAGTTGCCTGAAGTTTGTACATTTACCTTGGGGGTGCCTATTGGTCCTATGTTGGCCAAACCTACGAAAGGAGTTTCGGAGATTTTGGATAAATTTCAGGATATAAAGTTTACTTGTGAGTATAAATATGATGGGGAGCGTGCACAGATTCACTACATGGAAGATGGGTCTGTTGAGATTTACAGTCGGAATGCTGAACGCAATACTGGGAAGTTTCCAGATATTGTAGATTTTATTGGAAGATGCAAGAAGCCATCTGCGAAATCATTTGTTTTGGATACTGAAGTTGTTGCATTTGATCGGGAGAAGCAAAAAATCTTACCTTTCCAGGTTTTGAGCACTCGTGCCCGAAAAGGTGTTATAGTTAGTGACATCAAAGTGCAAGTTTGTATTTTTGCTTTTGACCTTTTATATCTTAATGACAGACAACTTTTACAAGAACAACTAAAAGTGCGAAGAGAGTTCTTGTATGATTCTTTTCAAGAGGAAGCAGGAAAATTCCAATTTGCAACTGCAACGGAATCAAATGATATAGAAGAAATGCAGAAATTTCTTCAAGAAGCTGTAAACAGTAGTTGTGAAGGTTTAATTATCAAAACACTGGAGCAAGATGCAACATATGAGCCTGCAAAGCGGTCTAATAACTGGTTGAAGTTGAAGAAAGATTATATGGACAGTATTGGGGATTCATTAGATCTTGTACCAATAGGGGCATTCCATGGTCGTGGAAAGCGTACAGGGGTTTATGGTGCTTTTCTTCTTGCATGCTATGATGAAGATACAGAAGAGTTTCAAAGTGTGTGTAAAATAGGCACAGGATTTACTGAAATAATGCTTGAAGAGCGTTCTGACAGTTTGCGGAATAAAGTCATCCCAAAGCCAAAGCCTTATTATCGCTATGGAGAGACATTAGGAGTAGATGTTTGGTTTGAGCCTTCAGAGGTATGGGAGGTCAAAGCTGCTGATTTAAGCATTAGCCCTGTTCATCGTGCAGCAGCTGGTGTGGTTGATCCTAACAAGGGTATTTCTCTTCGATTTCCACGTTTACTACGGGTTCGTGAAGACAAGAATCCAGATCAAGCGACTACTGCAGAGCAGGTCGCAGAAATGTATCGGGCCCAAAAAATTAACCATGCAGGAAATCATGGGGATGAAGACAATGACTGA___AAGAGAATACAGCTACACTGTTAGCCTCGAGTGTACAGGTTAGTGACCACCACAGGCATTGGCAGTCGTTTGGAATGGGATAGCATGCTTGGCCACATCGAGAGCACCGTTTTTACAAGGAAAAAGTTTCCTTTTGGCTAACAATCTGTTTAAAACGATGAGCTTCTTGGTAATATTGATCATGTTTTCTTAACGTGATTACTAAATGCCATGAAAGATGTTTTAATTTGGTACTTTGTCTTGGTATTCAATTCATATAGTATAGTTTACAAGGATTATCCCAGCTTATAACAAGAACATGTTATAAGTGGTTTTTTGTAATTGTTGTTTTCAGTGAACACATTAAGCATCTATGGCGTTAAATTTTTATAGATCAAGTAGCGTAGTGATAGCAGATCGATGCATGAGGTTCTAATGACGGATGGCCTGGTTTTGACTCGGTTCCCAATCGTGGAGCTTTCAACCATTATGTTTTTAGATCAGAAGCTCATGTAATTATTTTATAATTCTATTAGTAATAATTTATTACTGATGATATGACTCGCTCATTGTGGCAGTCTAGATTTAACAGTTGACAATTTGTCATGACTAGCCATTCCAATTTTGATCGACAAGATTTTTATTAAAGCAGTGCTTCAATTATCATGTGCATGTGCAAAGGAAATGAAAGACCTTGGTGTGGGCACATGCTAAATTTTTGTTTGTAGAGTATGGAATTGTATGAAAAGCACAGGTATTTCAGGACAAGATTAGGTGGAAGGTTAACTATAATGTATATTTACTGTTTTCTTCACAAGATTATGAACGTTATTAAAAGATCTATTCTTTTCT

Fln Alignment:

Contig430___KIAQLLKKASEFEPKAAAFWKDGEHVPFLFLARALDLISNESGRIAITEILCNVFRTVIATTPGDLVSVVYLSANKVAPAHEGVELGIGDASIIKALAEAFGRKEAQVKSQMKSLGDLGLVAKASRSTQMLMVKPTPLTCVKVLECFRFIAKESGKESQDKKRAHIKSLLVAATDCEPQYLVRLLQAKMRIGLAEQTVLVALGYAAVYSDEL----PVAQSRLEEAGRIVKQVYSVLPIYDKIVPVLLDVGVVKLPEVCTFTLGVPIGPMLAKPTKGVSEILDKFQDIKFTCEYKYDGERAQIHYMEDGSVEIYSRNAERNTGKFPDIVDFIGRCKKPSAKSFVLDTEVVAFDREKQKILPFQVLSTRARKGVIVSDIKVQVCIFAFDLLYLNDRQLLQEQLKVRREFLYDSFQEEAGKFQFATATESNDIEEMQKFLQEAVNSSCEGLIIKTLEQDATYEPAKRSNNWLKLKKDYMDSIGDSLDLVPIGAFHGRGKRTGVYGAFLLACYDEDTEEFQSVCKIGTGFTEIMLEERSDSLRNKVIPKPKPYYRYGETLGVDVWFEPSEVWEVKAADLSISPVHRAAAGVVDPNKGISLRFPRLLRVREDKNPDQATTAEQVAEMYRAQKINHAGNH--GDED
Q42572-3___________KIGLLKKKPNDFDPEKMSCWEKGERVPFLFVALAFDLISNESGRIVITDILCNMLRTVIATTPEDLVATVYLSANEIAPAHEGVELGIGESTIIKAISEAFGRTEDHVKKQNTELGDLGLVAKGSRSTQTMMFKPEPLTVVKVFDTFRQIAKESGKDSNEKKKNRMKALLVATTDCEPLYLTRLLQAKLRLGFSGQTVLAALGQAAVYNEEHSKPPPNTKSPLEEAAKIVKQVFTVLPVYDIIVPALLSGGVWNLPKTCNFTLGVPIGPMLAKPTKGVAEILNKFQDIVFTCEYKYDGERAQIHFMEDGTFEIYSRNAERNTGKYPDVALALSRLKKPSVKSFILDCEVVAFDREKKKILPFQILSTRARKNVNVNDIKVGVCIFAFDMLYLNGQQLIQENLKIRREKLYESFEEDPGYFQFATAVTSNDIDEIQKFLDASVDVGCEGLIIKTLDSDATYEPAKRSNNWLKLKKDYMDSIGDSVDLVPIAAFHGRGKRTGVYGAFLLACYDVDKEEFQSICKIGTGFSDAMLDERSSSLRSQVIATPKQYYRVGDSLNPDVWFEPTEVWEVKAADLTISPVHRAATGIVDPDKGISLRFPRLLRVREDKKPEEATSSEQIADLYQAQKHNHPSNEVKGDDD

SNPs (tot: 41)

Position	A %	C %	G %	T %	Probability
2185	83			16	0.994512
2186		16		83	0.994512
2188	83			16	0.994512
2191	16			83	0.994512
2192		16		83	0.994512
2198		14	42	42	1.0
2200	85		14		0.993533
2201	85			14	0.993533
2202		14		85	0.993533
2204		14		85	0.993533
2206		14	85		0.993533
2250		42		57	1.0
2268	42	57			1.0
2314		14		85	0.993533
2378	12			87	0.992554
2396	16			83	0.994512
2411	22		77		0.999999
2415	11			88	0.923564
2416	22	11	66		0.999999
2417	77		22		0.999999
2419	88			11	0.923564
2467		78		21	1.0
2527		10		90	0.90298
2528			10	90	0.90298
2530		10		90	0.90298
2531	90		10		0.90298
2533	90		10		0.90298
2535		10		90	0.90298
2536		10		90	0.90298
2537		90		10	0.90298
2539	90		10		0.90298
2540			10	90	0.90298
2541	20	10		70	0.999998
2542	90			10	0.90298
2546	90	10			0.90298
2592		20		80	0.999996
2632	11			88	0.923564
2635	88		11		0.923564
2648	25			75	1.0
2760		75		25	0.996473
2775	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