SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene18000

Length: 2166 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene18000
AATGGGGATGATACCAGTATTGCCTTCAGTTCGGCACTGAGAGATCCATTTCTTTCAATGTTGAGACAGTGAGTAGTATTAGTTTGTTATCTCTTTCAGGAATATATTGTGCTTGCAGGATCTTTAGTTTCTGCAACAATGTCGTTGCAATCAGTGCGTCTATCTTCTGCTCTCCTTGTTTTTCTACTAGCATTTGTTGCTTATTTAGTTGCTGTAACAAACGCAGATGTCCACAATTATACCTTCATTATTAGGAAGAAGACAGTTACCAGGCTGTGCAATAAGCGTATTATCGCCACCGTCAATGGACAGCTACCAGGCCCAACTATTCATGTACGTGATGGAGACATTGTTAATATCAAAGCTTATAACAAAGCTGGGTACAATGCCACTCTTCACTGGCATGGAGTCGAGCAGTTGCGTACAGGATGGGCCGATGGACCTGCATATGTTACACAGTGCCCCATTCCACCAGGTGGTCGTTATACATACAGATTCACCATTTCTGAACAGGAAGGCACAGTGTGGTGGCACGCTCATGTGTCATGGCTCCGAGCTACGGTGCATGGAGCTTTCGTAATCCTTCCTAAGAGAGGAAAACCATATCCCTTTCCTAAACCCCGTGCTGAAGTTCCTATTGTAATAGGAGAGTGGTGGAACAATAACCCAGTTGCTGTTATAGATGAAGCAGTTCGTACAGGTGGTGCACCTAATGTGTCTGATTCTTTCACAATAAACGGACAGCCAGGAGATCTGTTCCCCTGCTCTCGGTCTGAAACGTTTCGATTTGCTGTAAAACAAGGAGAAACCTACCTTCTGCGGATCGTGAATGCTGCACTCAATAGCGGGCACTTTTTTAAGATAGCAGGCCATCAATTTACAGTTGTAGCAGTGGATGCTTGCTATACCAAGCCATACAAAACCGATGTGCTTGTCATCGCTGCTGGACAGACTACAGATGTTCTTTTCACAGCCAACCAGCCTGTGAGCAAATACTATATGGCCGCCCGAGCATATAATAATCAGGCAGCAGGCGATTTCGATAACACAACAGCTACCGCCATTCTGGAGTATATTGGACATCAACATTCTACTCGTCCAATTATGCCTAGCCTTCCATATTACAATGATACTGCGACTGTCAATAGATTTAGCAATGCACTGCGAAGCCTGGCATCCCGGGAGTACCCAGTGGATGTTCCGCGTAAAATAGATGAAGACCTGATCATGACAGTTGGACTGGGGTTAAGTCCGTGCGGTACTGGTAAAACCTGTGAAGGCCCCAACGGGATGAGGCTGAGTGCAAGTGTCAACAACGTATCCTACGTGGAGCCCACGGTGGCCCTTCTTCAAGCATATTATTTCTCCATTAATGGTGTCTTCACGATGGATTTCCCATCAAAACCCCCTGTTAGATTTAACTACACGGGCGAGGATATAGTCGAAAGTCTTTGGGTTCCTGACAATGGCACAAAATTGAAGGTGCTCGACTACGGCTCGACAGTGCAGCTAGTTTTCCAGGCAACAAATATCTTCGTGCCTGAAAACCATCCGATGCATCTTCATGGTTACAACTTTTACGTGGTGGGACAAGGTTCCGGGAACTATAACCCTGTAAAGGACCCGGTTAAATTTAATCTGGTTGATCCCCCACAGCGCAACACAGTAATCGCTCCAGTAAGCGGGTGGGTTGCCATAAGATTCAAAGCTGATAATCCAGGAGTGTGGTTTCTGCACTGCCATTTAGACGACCATTTCACTTGGGGGTTGAATATGGTGTTTCTAGTGAAAAATGGCAGCGGTCCTCTGCAGTCATTGGAACCTCCTCCTCCAGACCTTCCCATGTGCTAGACAAGGAAATATCAATAACGGGGTAATAATGCTTGAGCAGGGTAATTGAGCTCAAAGCACAGGGTTAGGGTTTGTGTTGCAAAGGGTGTATGTGGATTTCAATTTAAAATCTCGTAACTCCATTAAGATAGGAATGTTGTGTAATTTGTATCTCTAAATATTAAATGGCATTTGATAAGGTGGAGCATTTAAAATTGTCGTTAAATTGTACGACAGTATGTGCTTTTGTGTTTATATGAGTGCCTCATTATGTAACATAAAATGTCAGTCTAACTGAGTATGAAAAAAGTTTGCGCTTGGAAGAAAAGGGCCTTT

Ace file of the UniGene sp_v3.0_unigene18000 (antisense)

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	Laccase n=2 Tax=Pinus taeda RepID=Q9AUI3_PINTA	-	-	60%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	75%
Sma3	Laccase, putative	-	-	-

Source	ECs	Term	Type	e value	Identity
Sma3	Laccase.	EC:1.10.3.2	-	0.0	-
Sma3	L-ascorbate oxidase.	EC:1.10.3.3	-	0.0	-

Source	KEGGs	Term	Type	e value	Identity
Sma3	Ascorbate and aldarate metabolism	00053		0.0	%
Sma3	Metabolic pathways	01100		0.0	%

Source	Gene names
Sma3	At1g18140; At2g29130; At2g30210; At2g38080; At2g40370; At2g46570; At3g09220; At5g01040; At5g01050; At5g01190; At5g03260; At5g05390; At5g07130; At5g09360; At5g48100; At5g58910; At5g60020; B1045D11.30; B1088C09.5; F13A10.10; F15A17_290; F16M14.1; F3L24.9; F

Source	GOs	Term	Type	Identity
Sma3	integral to membrane	GO:0016021	Cellular Component	-
Sma3	apoplast	GO:0048046	Cellular Component	-
Sma3	copper ion binding	GO:0005507	Molecular Function	-
Sma3	laccase activity	GO:0008471	Molecular Function	-
Sma3	oxidoreductase activity	GO:0016491	Molecular Function	-
Sma3	response to water deprivation	GO:0009414	Biological Process	-
Sma3	lignin biosynthetic process	GO:0009809	Biological Process	-
Sma3	secondary cell wall biogenesis	GO:0009834	Biological Process	-
Sma3	vegetative to reproductive phase transition of meristem	GO:0010228	Biological Process	-
Sma3	lignin catabolic process	GO:0046274	Biological Process	-
Sma3	oxidation-reduction process	GO:0055114	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Peptidase, cysteine peptidase active site	IPR000169	-	-
Sma3	Regulator of chromosome condensation, RCC1	IPR000408	-	-
Sma3	Oxidoreductase, molybdopterin-binding domain	IPR000572	-	-
Sma3	Multicopper oxidase, type 1	IPR001117	-	-
Sma3	Multicopper oxidase, copper-binding site	IPR002355	-	-
Sma3	Auxin efflux carrier	IPR004776	-	-
Sma3	Bacterial extracellular solute-binding family 1, conserved site	IPR006061	-	-
Sma3	Cupredoxin	IPR008972	-	-
Sma3	TonB box, conserved site	IPR010916	-	-
Sma3	Multicopper oxidase, type 2	IPR011706	-	-
Sma3	Multicopper oxidase, type 3	IPR011707	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	Laccase	IPR017761	-	-
Sma3	Glycoside hydrolase, family 1, active site	IPR018120	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT5G05390.1	LAC12 laccase 12 chr5:1594753-1597042 FORWARD LENGTH=565	58%
RefSeq	Arabidopsis thaliana	NP_196158.1	laccase 12 [Arabidopsis thaliana]	58%
RefSeq	Populus trichocarpa	XP_002312187.1	laccase 90b, partial [Populus trichocarpa]	58%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: C0PRA7

Fln msg:

Fln protein: MSLQSVRLSSALLVFLLAFVAYLVAVTNADVHNYTFIIRKKTVTRLCNKRIIATVNGQLPGPTIHVRDGDIVNIKAYNKAGYNATLHWHGVEQLRTGWADGPAYVTQCPIPPGGRYTYRFTISEQEGTVWWHAHVSWLRATVHGAFVILPKRGKPYPFPKPRAEVPIVIGEWWNNNPVAVIDEAVRTGGAPNVSDSFTINGQPGDLFPCSRSETFRFAVKQGETYLLRIVNAALNSGHFFKIAGHQFTVVAVDACYTKPYKTDVLVIAAGQTTDVLFTANQPVSKYYMAARAYNNQAAGDFDNTTATAILEYIGHQHSTRPIMPSLPYYNDTATVNRFSNALRSLASREYPVDVPRKIDEDLIMTVGLGLSPCGTGKTCEGPNGMRLSASVNNVSYVEPTVALLQAYYFSINGVFTMDFPSKPPVRFNYTGEDIVESLWVPDNGTKLKVLDYGSTVQLVFQATNIFVPENHPMHLHGYNFYVVGQGSGNYNPVKDPVKFNLVDPPQRNTVIAPVSGWVAIRFKADNPGVWFLHCHLDDHFTWGLNMVFLVKNGSGPLQSLEPPPPDLPMC*

Protein Length: 572

Fln nts: AATGGGGATGATACCAGTATTGCCTTCAGTTCGGCACTGAGAGATCCATTTCTTTCAATGTTGAGACAGTGAGTAGTATTAGTTTGTTATCTCTTTCAGGAATATATTGTGCTTGCAGGATCTTTAGTTTCTGCAACA_-_ATGTCGTTGCAATCAGTGCGTCTATCTTCTGCTCTCCTTGTTTTTCTACTAGCATTTGTTGCTTATTTAGTTGCTGTAACAAACGCAGATGTCCACAATTATACCTTCATTATTAGGAAGAAGACAGTTACCAGGCTGTGCAATAAGCGTATTATCGCCACCGTCAATGGACAGCTACCAGGCCCAACTATTCATGTACGTGATGGAGACATTGTTAATATCAAAGCTTATAACAAAGCTGGGTACAATGCCACTCTTCACTGGCATGGAGTCGAGCAGTTGCGTACAGGATGGGCCGATGGACCTGCATATGTTACACAGTGCCCCATTCCACCAGGTGGTCGTTATACATACAGATTCACCATTTCTGAACAGGAAGGCACAGTGTGGTGGCACGCTCATGTGTCATGGCTCCGAGCTACGGTGCATGGAGCTTTCGTAATCCTTCCTAAGAGAGGAAAACCATATCCCTTTCCTAAACCCCGTGCTGAAGTTCCTATTGTAATAGGAGAGTGGTGGAACAATAACCCAGTTGCTGTTATAGATGAAGCAGTTCGTACAGGTGGTGCACCTAATGTGTCTGATTCTTTCACAATAAACGGACAGCCAGGAGATCTGTTCCCCTGCTCTCGGTCTGAAACGTTTCGATTTGCTGTAAAACAAGGAGAAACCTACCTTCTGCGGATCGTGAATGCTGCACTCAATAGCGGGCACTTTTTTAAGATAGCAGGCCATCAATTTACAGTTGTAGCAGTGGATGCTTGCTATACCAAGCCATACAAAACCGATGTGCTTGTCATCGCTGCTGGACAGACTACAGATGTTCTTTTCACAGCCAACCAGCCTGTGAGCAAATACTATATGGCCGCCCGAGCATATAATAATCAGGCAGCAGGCGATTTCGATAACACAACAGCTACCGCCATTCTGGAGTATATTGGACATCAACATTCTACTCGTCCAATTATGCCTAGCCTTCCATATTACAATGATACTGCGACTGTCAATAGATTTAGCAATGCACTGCGAAGCCTGGCATCCCGGGAGTACCCAGTGGATGTTCCGCGTAAAATAGATGAAGACCTGATCATGACAGTTGGACTGGGGTTAAGTCCGTGCGGTACTGGTAAAACCTGTGAAGGCCCCAACGGGATGAGGCTGAGTGCAAGTGTCAACAACGTATCCTACGTGGAGCCCACGGTGGCCCTTCTTCAAGCATATTATTTCTCCATTAATGGTGTCTTCACGATGGATTTCCCATCAAAACCCCCTGTTAGATTTAACTACACGGGCGAGGATATAGTCGAAAGTCTTTGGGTTCCTGACAATGGCACAAAATTGAAGGTGCTCGACTACGGCTCGACAGTGCAGCTAGTTTTCCAGGCAACAAATATCTTCGTGCCTGAAAACCATCCGATGCATCTTCATGGTTACAACTTTTACGTGGTGGGACAAGGTTCCGGGAACTATAACCCTGTAAAGGACCCGGTTAAATTTAATCTGGTTGATCCCCCACAGCGCAACACAGTAATCGCTCCAGTAAGCGGGTGGGTTGCCATAAGATTCAAAGCTGATAATCCAGGAGTGTGGTTTCTGCACTGCCATTTAGACGACCATTTCACTTGGGGGTTGAATATGGTGTTTCTAGTGAAAAATGGCAGCGGTCCTCTGCAGTCATTGGAACCTCCTCCTCCAGACCTTCCCATGTGCTAG___ACAAGGAAATATCAATAACGGGGTAATAATGCTTGAGCAGGGTAATTGAGCTCAAAGCACAGGGTTAGGGTTTGTGTTGCAAAGGGTGTATGTGGATTTCAATTTAAAATCTCGTAACTCCATTAAGATAGGAATGTTGTGTAATTTGTATCTCTAAATATTAAATGGCATTTGATAAGGTGGAGCATTTAAAATTGTCGTTAAATTGTACGACAGTATGTGCTTTTGTGTTTATATGAGTGCCTCATTATGTAACATAAAATGTCAGTCTAACTGAGTATGAAAAAAGTTTGCGCTTGGAAGAAAAGGGCCTTT

Fln Alignment:

Contig18000___MSLQSVRXXXXXXXXXXXXXXXXXXVTNADVHNYTFIIRKKTVTRLCNKRIIATVNGQLPGPTIHVRDGDIVNIKAYNKAGYNATLHWHGVEQLRTGWADGPAYVTQCPIPPGGRYTYRFTISEQEGTVWWHAHVSWLRATVHGAFVILPKRGKPYPFPKPRAEVPIVIGEWWNNNPVAVIDEAVRTGGAPNVSDSFTINGQPGDLFPCSRSETFRFAVKQGETYLLRIVNAALNSGHFFKIAGHQFTVVAVDACYTKPYKTDVLVIAAGQTTDVLFTANQPVSKYYMAARAYNNQAAGDFDNTTATAILEYIGHQHSTRPIMPSLPYYNDTATVNRFSNALRSLASREYPVDVPRKIDEDLIMTVGLGLSPCGTGKTCEGPNGMRLSASVNNVSYVEPTVALLQAYYFSINGVFTMDFPSKPPVRFNYTGEDIVESLWVPDNGTKLKVLDYGSTVQLVFQATNIFVPENHPMHLHGYNFYVVGQGSGNYNPVKDPVKFNLVDPPQRNTVIAPVSGWVAIRFKADNPGVWFLHCHLDDHFTWGLNMVFLVKNGSGPLQSLEPPPPDLPMC
C0PRA7_______________MSLPSVRLSSAALVFLFTFAAYLAAIINAEIHHYTFVIERTIVTRLCKNYTIVTVNGQLPGPTIHVHNGDTVIVKAYNRAQHNATLHWHGVKQLRTGWADGPAYITQCPIPPGGHYTQRFTITGQEGTLWWHSHISWLRATVHGAIVILPQRGSLYPFPKPRAEIPIIIGEWWNKDPITVINQAILTGGAPNLSDAFTINGQPGDLYPCSTSETFRLPVKRGETYLLRIVNAALNTGHFFKIARHKFTVVAVDASYTKPYKTDVIVISAGQTTDVLVTADQPVGKYYMAARPYNNQAAGAFDNTTTTAIIEYIGYQNSTRPIFPKLPFYNDTPVVTKFSKALRSLASPEHPVEVPQTVHKSFISTVGLGLLPCETGNTCEGPNGTRLSASMNNVSFVDPTIAILQANYFGINGVFSTDFPSKPPHKFNYTGDDIPRNLWFPLPATKVKVLNYNATVQLVFQSTNIFVAENHPMHLHGYNFYVIGEGFGNYNPKTDPLKFNLVDPPERNTVIAPVSGWVAIRFKADNPGVWFLHCHLDDHLVWGLNMVFIVKNGHGPLATLEPPPKDLPPC

SNPs (tot: 13)

Position	A %	C %	G %	T %	Probability
1322		85		14	0.993533
1323	14	85			0.993533
1324	14	85			0.993533
1325		14	85		0.993533
1326	14	85			0.993533
1330			14	85	0.993533
1331		14	85		0.993533
1335		14	85		0.993533
1424		12		87	0.992554
1466	90	10			0.90298
1470		90		10	0.90298
1534		25		75	1.0
2159	85		15		1.0

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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