SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene9121

Length: 1933 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene9121

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	DNA topoisomerase 1 beta [Arabidopsis thaliana] dbj\|BAB08548.1\| DNA topoisomerase I [Arabidopsis thaliana] dbj\|BAE98926.1\| DNA topoisomerase I like protein [Arabidopsis thaliana] gb\|AED96615.1\| DNA topoisomerase 1 beta [Arabidopsis thaliana]	-	-	0.0	75%
FL-Next	sp=DNA topoisomerase 1; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	73%
Sma3	Topoisomerase I	-	-	4.127e-25	-

Source	ECs	Term	Type	e value	Identity
Sma3	DNA topoisomerase.	EC:5.99.1.2	-	6.501e-10	-

Source	Gene names
Sma3	At4g26701; At5g55300; At5g55310; CHLREDRAFT_114171; GSVIVT00025855001; GSVIVT00035757001; MICPUCDRAFT_49968; MICPUN_113917; MTE17.1; OJ1066_B03.125; OSTLU_17621; Os08g0154600; OsI_27847; OsJ_26075; Ot12g02020; PHATR_13384; PHYPADRAFT_107400; PHYPADRAFT_13

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	chromosome	GO:0005694	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	DNA topoisomerase type I activity	GO:0003917	Molecular Function	-
Sma3	DNA topoisomerase (ATP-hydrolyzing) activity	GO:0003918	Molecular Function	-
Sma3	RNA-directed DNA polymerase activity	GO:0003964	Molecular Function	-
Sma3	DNA topological change	GO:0006265	Biological Process	-
Sma3	DNA unwinding involved in replication	GO:0006268	Biological Process	-
Sma3	RNA-dependent DNA replication	GO:0006278	Biological Process	-
Sma3	shoot morphogenesis	GO:0010016	Biological Process	-
Sma3	flower morphogenesis	GO:0048439	Biological Process	-
Sma3	organ formation	GO:0048645	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3	DNA topoisomerase I, C-terminal	IPR001631	-	-
Sma3	Endonuclease/exonuclease/phosphatase	IPR005135	-	-
Sma3	DNA topoisomerase I, DNA binding, eukaryotic-type	IPR008336	-	-
Sma3	DNA topoisomerase I, DNA binding, mixed alpha/beta motif, eukaryotic-type	IPR013030	-	-
Sma3	DNA topoisomerase I, C-terminal, eukaryotic-type	IPR013499	-	-
Sma3	DNA topoisomerase I, catalytic core, eukaryotic-type	IPR013500	-	-
Sma3	DNA topoisomerase I, catalytic core, alpha-helical subdomain, eukaryotic-type	IPR014711	-	-
Sma3	DNA topoisomerase I, catalytic core, alpha/beta subdomain, eukaryotic-type	IPR014727	-	-
Sma3		IPR015706	-	-
Sma3		IPR018115	-	-
Sma3	DNA topoisomerase I, active site	IPR018521	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT5G55310.1	TOP1BETA, TOP1 DNA topoisomerase 1 beta chr5:22430389-22434590 REVERSE LENGTH=917	75%
RefSeq	Arabidopsis thaliana	NP_200342.1	DNA topoisomerase 1 beta [Arabidopsis thaliana]	75%
RefSeq	Populus trichocarpa	XP_002300344.1	predicted protein [Populus trichocarpa]	76%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: sp_plants

Fln subject: P30181

Fln msg: your sequence is shorter than subject: 433 - 916

Fln protein: KLKQEEKYMWAVVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIYPEDITINIGSKAPIPECTIPGHRWKEVRHDNSVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDKEKYEKARMLKEYIDNIRETYTRHFKAKDETKRQIAVATYLIDRLALRAGNEKDDDEADTVGCCTLKVENVQLLEPKSLQFDFLGKDSIRYFNTVEVDERVYQAIGDFKKAKSGGDDLFDKLDTSKLNAHLKEIMPGLTAKVFRTYNASITLDRLLQDTTGCIAPEKIADYQRANKEVAILCNHQRSVSKSHGAQMERLEGKMAELQSLIKELQIDLNRARKGKPPLNDAEGKPKKNLSPEVLEKKIAQAKVKMDKMSLNMRIKDDLKTVALGTSKINYLDPRISVAWCKRHEVPIEKIFNKSLLAKFAWAMDVEPDYRF*

Protein Length: 434

Fln nts: AAGCTAAAGCAAGAGGAAAAATACATGTGGGCAGTTGTTGATGGAGTGAAAGAGAAGGTTGGCAATTTCAGAGTTGAGCCCCCAGGATTATTTCGTGGCCGTGGAGAGCATCCTAAGATGGGTAAATTGAAGAAGAGAATTTATCCAGAGGACATTACAATTAATATTGGGTCTAAGGCTCCGATCCCGGAGTGTACAATACCTGGCCACAGGTGGAAAGAGGTCAGACATGATAACTCAGTCACATGGTTGGCTTTTTGGAATGACCCAATCAATCCAAAAGAATTCAAATATGTATTCTTAGCTGCGAGTAGTTCTTTAAAAGGTCAAAGTGACAAGGAAAAGTACGAGAAAGCAAGAATGCTGAAGGAGTACATAGATAACATTCGAGAAACATATACAAGACATTTTAAAGCAAAGGATGAAACCAAGAGACAAATTGCCGTGGCAACTTACCTTATTGATAGGCTTGCTCTGAGAGCTGGCAATGAGAAGGATGACGATGAGGCTGATACAGTTGGTTGTTGCACATTAAAAGTGGAGAATGTGCAATTACTTGAACCAAAATCTCTGCAGTTTGACTTCCTAGGTAAGGATTCAATTCGGTACTTCAACACAGTTGAGGTAGATGAGCGAGTCTACCAGGCGATTGGTGATTTCAAAAAGGCTAAAAGTGGCGGGGATGACTTGTTTGATAAGCTTGACACAAGCAAGCTAAATGCCCATCTTAAGGAAATTATGCCTGGCCTTACAGCAAAAGTCTTCCGTACATATAATGCATCTATCACATTGGATAGATTGCTTCAGGATACAACTGGTTGCATTGCACCAGAGAAGATAGCTGATTATCAACGTGCAAACAAGGAGGTAGCAATTCTGTGTAACCATCAGCGATCTGTCTCAAAGTCACATGGTGCTCAAATGGAAAGACTTGAAGGGAAAATGGCAGAGTTACAGAGCCTGATCAAGGAGCTGCAAATTGATCTGAATAGAGCAAGAAAAGGGAAGCCGCCACTCAATGATGCAGAAGGGAAGCCCAAAAAAAATCTGAGTCCAGAAGTGTTGGAAAAGAAAATTGCACAGGCCAAGGTGAAGATGGATAAAATGAGTCTCAACATGAGAATAAAAGATGATCTCAAGACTGTGGCATTGGGAACTTCTAAGATCAATTACTTGGACCCAAGAATTTCAGTTGCTTGGTGCAAACGCCATGAAGTTCCAATTGAAAAGATATTCAACAAGTCGCTTCTGGCCAAATTTGCTTGGGCAATGGATGTTGAGCCAGATTACAGATTTTAA___TGTTGCTTTGAGTTCCCAGCTTTTATCATGTACCCAATGGTGCACTCTGTATTATCGTTTAATGAAGAATGGGGTGTTACGATAAACACAATATGCCCGCGTGCTTTAGTCTCTGTTTTGCTAAGGATGGTGTAAAACAATTTTCTTGAGGCTCGTAGCCGTATTTAGTTGCTGGAGTCCATGCAAACTGTTGAACTCAGCAGGCCATCCTTGCATTGAATCTATGTAATTCTTTCCCTCCAAGAGGGAAGTACATGATCTATATATATTTAGTGCCTCAGATGCCAACTGCTCTTTATTACACGCACATGTGCCTTGTGTGCATTCTCGAGTTAGTGGGCAAGAATTTTTTATATAATTGTATGAGAGCTGGCCTGCAGGTGGGTATTATTGTCAATCTTCTTCTCAACCAGAGATGATCTTCAACTTTATGTTGCCATTCTTCATATGAATTCTTTTAAAGGAATCTTTTTGGGGTTTTCAACTATTTGTGTTTCACCAGATGAACAAAAATCATTCTCTCCAATCATGGCTTCTTTCTTTTAGCCTTTTGGGCCAAAGTAGTTTGTTTATTGTATTTTTCTCGCAGGTCTTCTGCTATTTTATTTCACGTATGTACTTGTTGGTGCATTTC

Fln Alignment:

Contig9121___KLKQEEKYMWAVVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIYPEDITINIGSKAPIPECTIPGHRWKEVRHDNSVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDKEKYEKARMLKEYIDNIRETYTRHFKAKDETKRQIAVATYLIDRLALRAGNEKDDDEADTVGCCTLKVENVQLLEPKSLQFDFLGKDSIRYFNTVEVDERVYQAIGDFKKAKSGGDDLFDKLDTSKLNAHLKEIMPGLTAKVFRTYNASITLDRLL-QDTTGCIAPEKIADYQRANKEVAILCNHQRSVSKSHGAQMERLEGKMAELQSLIKELQIDLNRARKGKPPLNDAEGKPKKNLSPEVLEKKIAQAKVKMDKMSLNMRIKDDLKTVALGTSKINYLDPRISVAWCKRHEVPIEKIFNKSLLAKFAWAMDVEPDYRF
P30181______________KMKQEEKYMWAVVDGVKEKIGNFRVEPPGLFRGRGEHPKMGKLKKRIHPCEITLNIGKGAPIPECPIAGERWKEVKHDNTVTWLAFWADPINPKEFKYVFLGAGSSLKGLSDKEKYEKARNLTDHIDNIRTTYTKNFTAKDVKMRQIAVATYLIDKLALRAGNEKDDDEADTVGCCTLKVGNVECIPPNKIKFDFLGKDSIQYVNTVEVEPLVYKAIGQFQAGKSKTDDLFDELDTSKLNAHLKELVPGLTAKVFRTYNASITLDEMLSQETKDGDVTQKIVVYQKANKEVAIICNHQRTVSKTHGAQIEKLTARIEELKEVLKELKTNLDRAKKGKPPLEGSDGKKIRSLEPNAWEKKIAQQSAKIEKMERDMHTKEDLKTVALGTSKINYLDPRITVAWCKRHEVPIEKIFTKSLLEKFAWAMDVEPEYRF

SNPs (tot: 45)

Position	A %	C %	G %	T %	Probability
150	11		88		0.923564
210		88		11	0.923564
238		11		88	0.923564
241	11		88		0.923564
242	11			88	0.923564
243	12	87			0.992554
245	12	87			0.992554
247	12			87	0.992554
248			87	12	0.992554
250		12	12	75	0.975346
253	14		85		0.993533
254		85	14		0.993533
256		14		85	0.993533
257		14		85	0.993533
259	14			85	0.993533
261	14		85		0.993533
263	85		14		0.993533
275	85			14	0.993533
277		85		14	0.993533
343	87		12		0.992554
387			11	88	0.923564
388		88	11		0.923564
533			11	88	0.999952
534	86		13		0.999973
535	86		13		0.999973
1037	11	88			0.923564
1041	85			14	0.993533
1042	87			12	0.992554
1228	81			18	0.999994
1229	81		18		0.999994
1230	81		18		0.999994
1441		12		87	1.0
1607	72		27		1.0
1691		3		96	0.991164
1694		3		96	0.991825
1781	5	17		76	1.0
1785	10	90			0.90298
1786	10			90	0.90298
1788	33			66	1.0
1789	22	11		66	0.999999
1790	25			75	1.0
1791	25		75		1.0
1792	25			75	1.0
1793	14		85		0.993533
1796		16		83	0.994512

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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