SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene1249

Length: 2438 nt

UniGene Fasta

>sp_v3.0_unigene1249
TCCTTCCCACGGCTTTCGGTCTTGGGGCCAACGGCAATTAACACCAAGGCGGACGGACCGCTTTTATCCGCTTTCTTTCTGTATAATATTGGTAAAAGCCACGCACCCTCGCCCCAAATCCTCTGCACAGCATTCCTTTCTCTTCGTTTTTCATAGCTGGAGAGCGCCATGGAGACCAACAACTGGAGGAATGAGGAATCCAGGCAGAAGATCGTCAATAAGATAATGGACACTCTTCAGAGACACTTGCCACAGACGGGTGCAGATGGAATGAATGAACTGAAAAAAATTGCTTTGCGGTTTGAGGAGAAGATTTATACAGTCGCTATAAGTCAGCAAGACTATCTACGGAGAATATCTCTCAAGATGCTATCATTAGAATCAAAAGCTAATGGACCTTCGAATCATTTTCCGGGTAGTTCTCCTGGTAACAACCAGCGGCCTCTGGATCCTGGAGGTATGATGTTACGACCACAGATTAGAAATCAACAGCAAGCATCTGCAAATAATCTCCCACTGACTGGGCAATCCTCAACCACAACAACCAATGCTCCAACAAAATCTGCAAAATAGCATATCTGCAGGTGGAATGCCGAGCTCAGCTGGTTTGGCACCTTCCTTGTCTTCGATTCCTAATGGTCTGCCACCTATGCAAGGAATGCCACATAATTCCATTAATAGCTCAACAAGTCAAGTTTTACCTCCTCTTCTTGCAAGCAATCAGAGGCAGCTACAATCAAGACAACAGCAGCAGCAGCAACATCAAATTTTTCAACAGCAGTTGCACCAACAGCAACAGGCTCTTCTGAACAAGAAGCTTCAACAGCAGTCTCAATTACAGCCATCACTTCTTCAACAGCAACAATCAGCCTTGCCACAGAGTCAGCTCCAGCCATCGCAGCAGGCTATGCTACAACCAGCTCAACAACCTGCTCTCCAATCAACTCAACAGTCTATTCTACAGCAATCCCAGCCCTCTATTCTACAACCTGCTCAACAATCTGTCCTTCAGTCAACTCAGCAATCTGCTCTACAACAAGCATCTCAGACTCCCCTTCAGCAGCATCAGCAATCTATGCTTAGGCAGCAACAATCACAGCAATCTGTTATACAACAGCAACAGCAGTCTTCTATGGTTCAGCAGTCAATTCTACAACCACATCAACAACACCAACAACTTTTTGGTCAGCAAAACATGCAGCAGCAGCAACACCAGCATCAAATTCACCAGCTTTTGCAATCCAAACATCAGCAAACACAGCAGACATCATCATCACTATTACAATCACAATCCCAGCAGTTGCAGCAACAGTCACAAGAGCAGCAGTTTCTCTCTCAGCTCCAATCTCAGACCCAACCATTGCAGCAACAGCAGCGACTGTTACAGCAACCAAATCCAATACAGCAAGAGCTGCAAAGGCTTCGGACAACTGGTGGTTTGTTGCAGCAGCAGCAGCAACTGAGCTCTATTGAACAACAAAAGCAGCTATTACAACCGCGCGGTCTGCCAGAGGGCTCTTCAACATCAATGGAATCATCAGGTCAAACTGGACAACCAACTGCTGCTGACTGGCAAGAGAAGGTTTATCAGAGACTACAAACTCTGAAGGAGATGTATTTTCCAGAGATAAAAAAATTGTTTAACAAACTTCAAACGAAATGTCAGCAGCCCATGCAACCTGATCAATCCGAAAAGCTTAAGCACTACAAAGCTACTTTGCAACGTATGATGGCATATATTCAAGTTCCAAAGAGCAGTATTCCACCAGGGTTTAAAGAAGACAAGGTTGATGCTTTCGAGAAACAGATTCAAGCCATTCTGAACTCGTTTACGCAGAGGAAATCTGCTCCACAACAACAACAGGGACAGCAACAACTTCCAAGCCAAGTTAACAACCAAGTGCAATCTATGCAACCACAAGAGAAGCATGTTAATCCACTCCAACAGATGAATTTACAGCCTTCGGTTACTTCAATGCAACCAAACAGCACGACACCTATTCAGCACAGTTCCATGCCTCTGTTACAGCAATCTGGTGGACAAACATCACACCAAAATATTCGTACTACGATGCAGTCTGCCACCAATCTAAATGCATCGCAAGGAAGTGGTGTAACTTCCTTGCAGCAGAGTTCATTAAACCATCTTCAACATAATAATAATATTAATTCTCTTCAGCAAAATAATGCTCCTCTTCAGCAGAATAATATTAGCTCCTTACAGCAGAATGGCATGAATTCTCTACAACAAAATAATATAAATGCTCTGCAACAACACCACCAAGTTCTAAAGCAGCAAGAAATGATGCAAGCACAAGCACAACTTAAGATACATCAGCAGCAGCATTTTCAACATCAGTTGTCGCAACAGCAGCTGCAGTATCATCTCCAACAGCAGCAGCAGCAGCAGCAGCATTATTTCCAACAGCAACAAGATC

Ace file of the UniGene sp_v3.0_unigene1249

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal	-	-	4.0e-33	22%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	76%
Sma3	Chromosome chr13 scaffold_120, whole genome shotgun sequence	-	-	1.488e-14	-

Source	Gene names
Sma3	CTV.20; GSVIVT00001697001; GSVIVT00001698001; GSVIVT00001703001; GSVIVT00001710001; POPTRDRAFT_640823; POPTRDRAFT_677012; POPTRDRAFT_817027;

Source	GOs	Term	Type	Identity
Sma3	transcription cofactor activity	GO:0003712	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	RNA-directed DNA polymerase activity	GO:0003964	Molecular Function	-
Sma3	aspartic-type endopeptidase activity	GO:0004190	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	RNA-dependent DNA replication	GO:0006278	Biological Process	-
Sma3	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	-
Sma3	proteolysis	GO:0006508	Biological Process	-
Sma3	transport	GO:0006810	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3	Tobamoviral movement protein	IPR001022	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Peptidase aspartic, active site	IPR001969	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT1G15780.1	" unknown protein; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT2G10440.1); Has 103701 Blast hits to 43153 proteins in 1828 species: Archae - 30; Bacteria - 7385; Metazoa - 38639; Fungi - 11531; Plants - 7727; Viruses - 307; Other	3.0e-24	45%
RefSeq	Arabidopsis thaliana	NP_173030.1	uncharacterized protein [Arabidopsis thaliana]	4.0e-24	45%

Full-Lengther Next Prediction

Fln status: Putative Complete

Fln database: coniferopsida.fasta

Fln subject: A9P2N7

Fln msg: STOP codon was not found. Distance to subject end: 189 aas, your sequence is longer than subject: 630 - 89

Fln protein: MLQQNLQNSISAGGMPSSAGLAPSLSSIPNGLPPMQGMPHNSINSSTSQVLPPLLASNQRQLQSRQQQQQQHQIFQQQLHQQQQALLNKKLQQQSQLQPSLLQQQQSALPQSQLQPSQQAMLQPAQQPALQSTQQSILQQSQPSILQPAQQSVLQSTQQSALQQASQTPLQQHQQSMLRQQQSQQSVIQQQQQSSMVQQSILQPHQQHQQLFGQQNMQQQQHQHQIHQLLQSKHQQTQQTSSSLLQSQSQQLQQQSQEQQFLSQLQSQTQPLQQQQRLLQQPNPIQQELQRLRTTGGLLQQQQQLSSIEQQKQLLQPRGLPEGSSTSMESSGQTGQPTAADWQEKVYQRLQTLKEMYFPEIKKLFNKLQTKCQQPMQPDQSEKLKHYKATLQRMMAYIQVPKSSIPPGFKEDKVDAFEKQIQAILNSFTQRKSAPQQQQGQQQLPSQVNNQVQSMQPQEKHVNPLQQMNLQPSVTSMQPNSTTPIQHSSMPLLQQSGGQTSHQNIRTTMQSATNLNASQGSGVTSLQQSSLNHLQHNNNINSLQQNNAPLQQNNISSLQQNGMNSLQQNNINALQQHHQVLKQQEMMQAQAQLKIHQQQHFQHQLSQQQLQYHLQQQQQQQQHYFQQQQD

Protein Length: 631

Fln nts: TCCTTCCCACGGCTTTCGGTCTTGGGGCCAACGGCAATTAACACCAAGGCGGACGGACCGCTTTTATCCGCTTTCTTTCTGTATAATATTGGTAAAAGCCACGCACCCTCGCCCCAAATCCTCTGCACAGCATTCCTTTCTCTTCGTTTTTCATAGCTGGAGAGCGCCATGGAGACCAACAACTGGAGGAATGAGGAATCCAGGCAGAAGATCGTCAATAAGATAATGGACACTCTTCAGAGACACTTGCCACAGACGGGTGCAGATGGAATGAATGAACTGAAAAAAATTGCTTTGCGGTTTGAGGAGAAGATTTATACAGTCGCTATAAGTCAGCAAGACTATCTACGGAGAATATCTCTCAAGATGCTATCATTAGAATCAAAAGCTAATGGACCTTCGAATCATTTTCCGGGTAGTTCTCCTGGTAACAACCAGCGGCCTCTGGATCCTGGAGGTATGATGTTACGACCACAGATTAGAAATCAACAGCAAGCATCTGCAAATAATCTCCCACTGACTGGGCAATCCTCAACCACAACAACCA_-_ATGCTCCAACAAAATCTGCAAAATAGCATATCTGCAGGTGGAATGCCGAGCTCAGCTGGTTTGGCACCTTCCTTGTCTTCGATTCCTAATGGTCTGCCACCTATGCAAGGAATGCCACATAATTCCATTAATAGCTCAACAAGTCAAGTTTTACCTCCTCTTCTTGCAAGCAATCAGAGGCAGCTACAATCAAGACAACAGCAGCAGCAGCAACATCAAATTTTTCAACAGCAGTTGCACCAACAGCAACAGGCTCTTCTGAACAAGAAGCTTCAACAGCAGTCTCAATTACAGCCATCACTTCTTCAACAGCAACAATCAGCCTTGCCACAGAGTCAGCTCCAGCCATCGCAGCAGGCTATGCTACAACCAGCTCAACAACCTGCTCTCCAATCAACTCAACAGTCTATTCTACAGCAATCCCAGCCCTCTATTCTACAACCTGCTCAACAATCTGTCCTTCAGTCAACTCAGCAATCTGCTCTACAACAAGCATCTCAGACTCCCCTTCAGCAGCATCAGCAATCTATGCTTAGGCAGCAACAATCACAGCAATCTGTTATACAACAGCAACAGCAGTCTTCTATGGTTCAGCAGTCAATTCTACAACCACATCAACAACACCAACAACTTTTTGGTCAGCAAAACATGCAGCAGCAGCAACACCAGCATCAAATTCACCAGCTTTTGCAATCCAAACATCAGCAAACACAGCAGACATCATCATCACTATTACAATCACAATCCCAGCAGTTGCAGCAACAGTCACAAGAGCAGCAGTTTCTCTCTCAGCTCCAATCTCAGACCCAACCATTGCAGCAACAGCAGCGACTGTTACAGCAACCAAATCCAATACAGCAAGAGCTGCAAAGGCTTCGGACAACTGGTGGTTTGTTGCAGCAGCAGCAGCAACTGAGCTCTATTGAACAACAAAAGCAGCTATTACAACCGCGCGGTCTGCCAGAGGGCTCTTCAACATCAATGGAATCATCAGGTCAAACTGGACAACCAACTGCTGCTGACTGGCAAGAGAAGGTTTATCAGAGACTACAAACTCTGAAGGAGATGTATTTTCCAGAGATAAAAAAATTGTTTAACAAACTTCAAACGAAATGTCAGCAGCCCATGCAACCTGATCAATCCGAAAAGCTTAAGCACTACAAAGCTACTTTGCAACGTATGATGGCATATATTCAAGTTCCAAAGAGCAGTATTCCACCAGGGTTTAAAGAAGACAAGGTTGATGCTTTCGAGAAACAGATTCAAGCCATTCTGAACTCGTTTACGCAGAGGAAATCTGCTCCACAACAACAACAGGGACAGCAACAACTTCCAAGCCAAGTTAACAACCAAGTGCAATCTATGCAACCACAAGAGAAGCATGTTAATCCACTCCAACAGATGAATTTACAGCCTTCGGTTACTTCAATGCAACCAAACAGCACGACACCTATTCAGCACAGTTCCATGCCTCTGTTACAGCAATCTGGTGGACAAACATCACACCAAAATATTCGTACTACGATGCAGTCTGCCACCAATCTAAATGCATCGCAAGGAAGTGGTGTAACTTCCTTGCAGCAGAGTTCATTAAACCATCTTCAACATAATAATAATATTAATTCTCTTCAGCAAAATAATGCTCCTCTTCAGCAGAATAATATTAGCTCCTTACAGCAGAATGGCATGAATTCTCTACAACAAAATAATATAAATGCTCTGCAACAACACCACCAAGTTCTAAAGCAGCAAGAAATGATGCAAGCACAAGCACAACTTAAGATACATCAGCAGCAGCATTTTCAACATCAGTTGTCGCAACAGCAGCTGCAGTATCATCTCCAACAGCAGCAGCAGCAGCAGCAGCATTATTTCCAACAGCAACAAGATC

Fln Alignment:

Contig1249___LKEMYFPEIKKLFNKLQTKCQQPMQPDQSEKLKHYKATLQRMMAYIQVPKSSIPPGFKEDKVDAFEKQIQAILNSFTQRKSA
A9P2N7______________MKEMYYPEIKELFTKLSNKCQQPMAPDQFEKLKHYKTTLQRVMAYFKVQKSSIPPGFKEDKVDSFERQIQAILGSFKKRHSA

SNPs (tot: 64)

Position	A %	C %	G %	T %	Probability
99	33		66		1.0
104	33		66		1.0
109	25	75			0.996473
111		75	25		0.996473
113		75	25		0.996473
114		75	25		0.996473
132	66		33		1.0
135		50		50	1.0
153		66		33	1.0
250	44			55	1.0
279	14			85	0.993533
292	50			25	0.995533
294	25			75	0.996473
300		16	83		0.994512
301	16	83			0.994512
472		85	14		0.993533
520		85		14	0.993533
721		75		25	0.996473
786		12		87	0.992554
788		87		12	0.992554
792	87			12	0.992554
793	87			12	0.992554
795	87			12	0.992554
799	87	12			0.992554
1065	83			16	0.994512
1066		16	83		0.994512
1067	16	83			0.994512
1266	90			10	0.90298
1267			90	10	0.90298
1268	90	10			0.90298
1322		12	87		0.992554
1331		12		87	0.992554
1364	14			85	0.993533
1405	80		20		0.995493
1411	60			20	0.99255
1412			80	20	0.995493
1415		75		25	0.996473
1428	20		80		0.995493
1456	20		80		0.995493
1501	60		40		1.0
1503	60		40		1.0
1504		40		60	1.0
1540	75		25		0.996473
1620	33		66		0.997452
1626		66		33	0.997452
1634	33		66		0.997452
1637	66		33		0.997452
1639	66			33	0.997452
1647	33	66			0.997452
1651	33		66		0.997452
1682	25	75			0.996473
1684	25			75	0.996473
1691			25	75	0.996473
1715	25		75		0.996473
1742	75			25	0.996473
1994	87		12		0.992554
1995		87		12	0.992554
2066		16		83	0.994512
2204	90	10			0.90298
2220		22		77	1.0
2347	16		83		0.994512
2350			83	16	0.994512
2351	16			16	0.988813
2362		33		66	0.997452

SSRs (tot: 6)

Start position	End position	Sequence	Length
746	759	CAG CAG CAG CAG CA	14
1198	1209	GCA GCA GCA GCA	12
1444	1458	GCA GCA GCA GCA GCA	15
1852	1863	ACA ACA ACA ACA	12
2154	2165	ATA ATA ATA ATA	12
2393	2415	CAG CAG CAG CAG CAG CAG CAG CA	23

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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