SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene19456

Length: 2550 nt

UniGene Fasta

>sp_v3.0_unigene19456
CGTCGTGACCTTGGCTGTCACTCAATCTTTATAGCCTGGTTTTCTTTTACCCAAGCGGCACTGTGTATTTTAGGATTTTCGGGATTTATCAGCGATTTTACGTCGGTTTTTCCCAATTTTGGAAATCGAGGGCAGGAGGGGCCGCATATAAGAGGGTTATTGTAGCGTTCTTTGATTTTAATATCCTTTCACAGGGGAAAGGAGAAATAGAGGTAGGAGAAACCGAAGCCGTAGCCGTAGCCGGAAACGAGAACAGCGCGAGAGCGAATTCACCACGGCTTGCTTGACGGATTTTCTGTCGCTGGTCGACTCTGGGAGCTTCAATCTGAACCGAAGAAGATGAAGCATATCTATCAAAGAGGCAAAGAATTGATGATGTAATTGATCAGAAGGGTAGAATGAAAATGGACAGTTTGAATGATGATGATGAGGATGCTCCTCTTATTTTCAGACGGTCCAATCCAACTATCAAGCCAAAACAATCAAATGCTTACCAAAACAACACATCTGTTACATCTCAAAGGCTTGTCTCAAATACTTCTGCTTCAAGAGATGTAGTGCAGGCAAAGTCCCCACCCATTGTGCAGAGACCTGCCATACAATCTAAGAACACTCCAGTCCCACCCATTGTGCAGAGACCTGCCATACAATCGAAGAACACTCCAGTGGCAAGGCCATCAGCTCCTTATCCTTCAAAATCCAGCTCTGGCAACATGAGTTCTGCTCCAAGATTGCCTCAGCCCAAGCACGTTTCTGTTTGTGTGGGTAGAGCTCCCAGTTCGGAGCAGAGATCTGGAAAGAGGCCTCCAGATGGTGATGACTCTAGGCCTCTAAAGAATTTGCTTTTTGGAGTAGATGATGGTGATTCTGATGATTCTGAAGATGGCAAGCCTTTAAGTCATAAGGTGTCTATATTGCCAAAAGGAGCTACAGAAAATACATTCTCCAGAGATTCAAAAAAAAGTTGCAATTTGCTGCCTACTAGCAAATTTATTCAGCCCAAAGTATCTATGCAAACAGAGTCTGCGAAGTCTGAGAATGATTCAGATGATGATGTTCCCTTGCGTAAGAGGTTTCAGGTAAAACCGTTGACAAAACCACCCAGTGAAGGTTCTCCTATGGGTGCTGTTGACTCCGAGGATGAGAAGCCTTTAGCATTAAGACACACACCAAAATCTCCCAATGAAAGATCCCCCATGGATAGTGACGACTCTGAAGATGAGAAACCTTTATCAACAAGACACAATCTAAAACAAGCCAATAAAGGTTCCTTTATGGATAGTGATGTAAATAATGTAGCATTAAAGAACAAATCAAATGGATTGGTTAAGAAAGACATAAATGGAAAAACTCAGTCTGTTAAAATTGAAATTAATTCCAAGAAGAGACCTTCAGATCAGGGGGATAACAGTCTAAGCTATTCAATCACCAAAAAGGCCAAGCCATCAGGTGTATCACCAGAGCCCAAAGTGAAAGCAGAACCAGAGGTTAAGGCAGAGGCTGATGGATACAGTGATGATGAGGATGATATTCCTATTGCTCAGCGCATGAAGAAAGCTCAAATGGCAAAGCCATCACCTCCTTTAGCTAAGCTACCTTCCTCAATCGAAAAGGTTGTCAAGGAAGAGAGGAAGGAGAATATTAAGATAGATCCCGATGATGATACTGACGATGAGGATGATATTCCAATTGCACAGCGCTTGAAGAAAACTGAATTGCCAAAGCCATCGCCTTCTATAGCAAAGCCATCACCTTCTATAGCAAAACCATCGCCTTCTATAGCAAAGTCAAAGGCTTTCAAGAAGAAGGTGCTGCCAGTTAAGAGCATAACAAGCAGTGCAAAAAAGTTGAAAGGGGGGAAATTGCCTCCTGGATCTGGAGAAGGTCAGAAGTGGACAACTTTGCAGCACAGTGGAGTGATTTTCCCTCCGCCTTACAAGCCTCATGGAGTTAAGCTGCTTTACAATGGCAAGCCAGTTGATCTAACTCCTGAAGAAGAGGAGGTTGCCACTATGTTTGCTGTCATGAAGGACACTGACTATGCAACAAAGCCGAAATTCTTAGAGAACTTTTGGCATGATTGGAAGAAAATTCTGGGGCCAAAGCATGTTATTCAAAAGTTTGAACTCTGCGATTTTACACCAATTTATGATTGGCATCTCAGGGAAAAAGAGGTGAAGGAAAACATGAATGCTATGTTCGAGAAGATGGAGCAGTATCTCCTCTCCAACCCCAACGTATACTGCTAAATCTATCGACATCTATGTAGTTAAATATCCATAAAACAGTTTACTGCCGCTGCGTTCATATGAATGAAACGGCTTAAACTCTCTGAACAATAAAGAAAGAGTGTGATGTGCACTCCTCTTCCGTTATTGACGTTGTTTAGTGTCATAAAATCCCGTGTGCGTGGGAGACCTGCAAGAATAGCTCCTGTCTCGTGCATCTATCTGATGCCAATATTAATTGCATACGGTGCCCGTTCAACCGTAGATCTTTGGTCTGTAAAAGCTTCTTTTAGTTCAATTTGAACCGAATTATTCGACTCCT

Ace file of the UniGene sp_v3.0_unigene19456

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Whole genome shotgun sequence of line PN40024, scaffold_59.assembly12x (Fragment) n=1 Tax=Vitis vinifera RepID=D7TE60_VITVI	-	-	1.4013e-45	76%
FL-Next	sp=DNA topoisomerase 1; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	65%

Source	Gene names
Sma3	At5g55300; CHLREDRAFT_114171; PHYPADRAFT_107400; PHYPADRAFT_139910; TOP1;

Source	GOs	Term	Type	Identity
Sma3	chromosome	GO:0005694	Cellular Component	-
Sma3	DNA topoisomerase type I activity	GO:0003917	Molecular Function	-
Sma3	DNA topoisomerase (ATP-hydrolyzing) activity	GO:0003918	Molecular Function	-
Sma3	DNA topological change	GO:0006265	Biological Process	-
Sma3	DNA unwinding involved in replication	GO:0006268	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	DNA topoisomerase I, C-terminal	IPR001631	-	-
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	DNA topoisomerase I, active site	IPR018521	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT5G55300.2	TOP1ALPHA DNA topoisomerase I alpha chr5:22424701-22429045 REVERSE LENGTH=933	1.4013e-45	65%
RefSeq	Arabidopsis thaliana	NP_200341.1	DNA topoisomerase 1 [Arabidopsis thaliana]	1.4013e-45	65%
RefSeq	Populus trichocarpa	XP_002300344.1	predicted protein [Populus trichocarpa]	1.4013e-45	69%

Full-Lengther Next Prediction

Fln status: N-terminus

Fln database: sp_plants

Fln subject: P30181

Fln msg: Unexpected STOP codon at 3' end. Distance to subject end: 327 aas, your sequence is shorter than subject: 617 - 916

Fln protein: MKMDSLNDDDEDAPLIFRRSNPTIKPKQSNAYQNNTSVTSQRLVSNTSASRDVVQAKSPPIVQRPAIQSKNTPVPPIVQRPAIQSKNTPVARPSAPYPSKSSSGNMSSAPRLPQPKHVSVCVGRAPSSEQRSGKRPPDGDDSRPLKNLLFGVDDGDSDDSEDGKPLSHKVSILPKGATENTFSRDSKKSCNLLPTSKFIQPKVSMQTESAKSENDSDDDVPLRKRFQVKPLTKPPSEGSPMGAVDSEDEKPLALRHTPKSPNERSPMDSDDSEDEKPLSTRHNLKQANKGSFMDSDVNNVALKNKSNGLVKKDINGKTQSVKIEINSKKRPSDQGDNSLSYSITKKAKPSGVSPEPKVKAEPEVKAEADGYSDDEDDIPIAQRMKKAQMAKPSPPLAKLPSSIEKVVKEERKENIKIDPDDDTDDEDDIPIAQRLKKTELPKPSPSIAKPSPSIAKPSPSIAKSKAFKKKVLPVKSITSSAKKLKGGKLPPGSGEGQKWTTLQHSGVIFPPPYKPHGVKLLYNGKPVDLTPEEEEVATMFAVMKDTDYATKPKFLENFWHDWKKILGPKHVIQKFELCDFTPIYDWHLREKEVKENMNAMFEKMEQYLLSNPNVYC*

Protein Length: 618

Fln nts: CGTCGTGACCTTGGCTGTCACTCAATCTTTATAGCCTGGTTTTCTTTTACCCAAGCGGCACTGTGTATTTTAGGATTTTCGGGATTTATCAGCGATTTTACGTCGGTTTTTCCCAATTTTGGAAATCGAGGGCAGGAGGGGCCGCATATAAGAGGGTTATTGTAGCGTTCTTTGATTTTAATATCCTTTCACAGGGGAAAGGAGAAATAGAGGTAGGAGAAACCGAAGCCGTAGCCGTAGCCGGAAACGAGAACAGCGCGAGAGCGAATTCACCACGGCTTGCTTGACGGATTTTCTGTCGCTGGTCGACTCTGGGAGCTTCAATCTGAACCGAAGAAGATGAAGCATATCTATCAAAGAGGCAAAGAATTGATGATGTAATTGATCAGAAGGGTAGA_-_ATGAAAATGGACAGTTTGAATGATGATGATGAGGATGCTCCTCTTATTTTCAGACGGTCCAATCCAACTATCAAGCCAAAACAATCAAATGCTTACCAAAACAACACATCTGTTACATCTCAAAGGCTTGTCTCAAATACTTCTGCTTCAAGAGATGTAGTGCAGGCAAAGTCCCCACCCATTGTGCAGAGACCTGCCATACAATCTAAGAACACTCCAGTCCCACCCATTGTGCAGAGACCTGCCATACAATCGAAGAACACTCCAGTGGCAAGGCCATCAGCTCCTTATCCTTCAAAATCCAGCTCTGGCAACATGAGTTCTGCTCCAAGATTGCCTCAGCCCAAGCACGTTTCTGTTTGTGTGGGTAGAGCTCCCAGTTCGGAGCAGAGATCTGGAAAGAGGCCTCCAGATGGTGATGACTCTAGGCCTCTAAAGAATTTGCTTTTTGGAGTAGATGATGGTGATTCTGATGATTCTGAAGATGGCAAGCCTTTAAGTCATAAGGTGTCTATATTGCCAAAAGGAGCTACAGAAAATACATTCTCCAGAGATTCAAAAAAAAGTTGCAATTTGCTGCCTACTAGCAAATTTATTCAGCCCAAAGTATCTATGCAAACAGAGTCTGCGAAGTCTGAGAATGATTCAGATGATGATGTTCCCTTGCGTAAGAGGTTTCAGGTAAAACCGTTGACAAAACCACCCAGTGAAGGTTCTCCTATGGGTGCTGTTGACTCCGAGGATGAGAAGCCTTTAGCATTAAGACACACACCAAAATCTCCCAATGAAAGATCCCCCATGGATAGTGACGACTCTGAAGATGAGAAACCTTTATCAACAAGACACAATCTAAAACAAGCCAATAAAGGTTCCTTTATGGATAGTGATGTAAATAATGTAGCATTAAAGAACAAATCAAATGGATTGGTTAAGAAAGACATAAATGGAAAAACTCAGTCTGTTAAAATTGAAATTAATTCCAAGAAGAGACCTTCAGATCAGGGGGATAACAGTCTAAGCTATTCAATCACCAAAAAGGCCAAGCCATCAGGTGTATCACCAGAGCCCAAAGTGAAAGCAGAACCAGAGGTTAAGGCAGAGGCTGATGGATACAGTGATGATGAGGATGATATTCCTATTGCTCAGCGCATGAAGAAAGCTCAAATGGCAAAGCCATCACCTCCTTTAGCTAAGCTACCTTCCTCAATCGAAAAGGTTGTCAAGGAAGAGAGGAAGGAGAATATTAAGATAGATCCCGATGATGATACTGACGATGAGGATGATATTCCAATTGCACAGCGCTTGAAGAAAACTGAATTGCCAAAGCCATCGCCTTCTATAGCAAAGCCATCACCTTCTATAGCAAAACCATCGCCTTCTATAGCAAAGTCAAAGGCTTTCAAGAAGAAGGTGCTGCCAGTTAAGAGCATAACAAGCAGTGCAAAAAAGTTGAAAGGGGGGAAATTGCCTCCTGGATCTGGAGAAGGTCAGAAGTGGACAACTTTGCAGCACAGTGGAGTGATTTTCCCTCCGCCTTACAAGCCTCATGGAGTTAAGCTGCTTTACAATGGCAAGCCAGTTGATCTAACTCCTGAAGAAGAGGAGGTTGCCACTATGTTTGCTGTCATGAAGGACACTGACTATGCAACAAAGCCGAAATTCTTAGAGAACTTTTGGCATGATTGGAAGAAAATTCTGGGGCCAAAGCATGTTATTCAAAAGTTTGAACTCTGCGATTTTACACCAATTTATGATTGGCATCTCAGGGAAAAAGAGGTGAAGGAAAACATGAATGCTATGTTCGAGAAGATGGAGCAGTATCTCCTCTCCAACCCCAACGTATACTGCTAAATCTATCGACATCTATGTAGTTAAATATCCATAAAACAGTTTACTGCCGCTGCGTTCATATGAATGAAACGGCTTAAACTCTCTGAACAATAAAGAAAGAGTGTGATGTGCACTCCTCTTCCGTTATTGACGTTGTTTAGTGTCATAAAATCCCGTGTGCGTGGGAGACCTGCAAGAATAGCTCCTGTCTCGTGCATCTATCTGATGCCAATATTAATTGCATACGGTGCCCGTTCAACCGTAGATCTTTGGTCTGTAAAAGCTTCTTTTAGTTCAATTTGAACCGAATTATTCGACTCCT

Fln Alignment:

Contig19456___KSITSSAXXXXXXXXXXXXXEGQK-WTTLQHSGVIFPPPYKPHGVKLLYNGKPVDLTPEEEEVATMFAVMKDTDYATKPKFLENFWHDWKKILGPKHVIQKFELCDFTPIYDWHLREKEVKENMNAMFEK
P30181_______________KKVTKDSKYSTSSKSSPSSGDGQKKWTTLVHNGVIFPPPYKPHGIKILYKGKPVDLTIEQEEVATMFAVMRETDYYTKPQFRENFWNDWRRLLGKKHVIQKLDDCDFTPIYEWHLEEKEKKKQMSTEEKK

SNPs (tot: 26)

Position	A %	C %	G %	T %	Probability
153	80	20			0.995493
155		20	80		0.995493
158			20	80	0.995493
160		20		80	0.995493
161		20		80	0.995493
162			80	20	0.995493
164	80		20		0.995493
169		20		80	0.995493
170	20	80			0.995493
171		20		80	0.995493
173		20		80	0.995493
174	20		80		0.995493
211	75		25		0.996473
925	33		66		0.997452
927			66	33	0.997452
928		66	33		0.997452
1190	66		33		1.0
1208		16		83	0.994512
1213		87		12	0.992554
1379		66	33		1.0
1573		83		16	0.994512
1576		83		16	0.994512
1578		83	16		0.994512
1582	16	83			0.994512
1607	14	85			0.993533
1814			85	14	0.993533

SSRs (tot: 1)

Start position	End position	Sequence	Length
418	430	ATG ATG ATG ATG A	13

Back

Biología Molecular y Biotecnología de Plantas, Facultad de Ciencias y Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071 Málaga, Spain