SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene4673

Length: 2310 nt

UniGene Fasta

>sp_v3.0_unigene4673
TCAATTTTGGCCAACGTGCTTGAGGAGGATGCACTGAAACTGTACACTCTTATATGGTGCCGAACAATGGCTTGTCAAATGAGTGAGGCTGAAATAAGTCAGATATCAGTGATCTTTGGGAATGAAGATGAATCTCTTTTGCTTCGATCAAGTGCTTCAGCTATCTCGTTTCCTGGATATTTAGCTGTATTCAAGGACAATGAAACTCGCAGCGTGTGCACAGTTTGGAATCGCAGGACGCCACCGTGGTCTGTGTCTGAGGGGTAAGGTAAGCTATTGGTATTGGTGTGTAGGCACAGATGGAGGAGGCGAGGGCCCCCTCGTACTGGTGGTGCTACGAATGCAGAAAGGAGGTTACGCCAGAGCCTGGGGTGGCCCTCGAACTCAATCTCAATCTGAACTCGAACCCGAACCCGGTCTGCTGCCTTTGCCAAGAAGGTTTCTTGGAGCGAATCTATGCATCATCATCAGTTGCAGCTGGAATTGGAATTGGAAGTGGAAACCCCCATGAAAGCCGTCTTCTCTGGAATGAACCGCCCCAAAGCCTCTACTTCCACGATTTCTTTGGGGTTATCCGTTCCTCGCCTTACAGAGCCCTGTCCCTGGATAATCATGATCGCGATCACAATTACTCTAATGAAGGTGAGGGAGAGAGGGCTGTCGATTATTTGGACTGCTTCTCTGACGGGATTGATTCTAATGGCCACTTCTTGCCGGAAGGCCGAATCGTAGAAGAAGAAGAGGAGCAGCTATGGGAAAATCTGGGCGTTTCCGAGAATTTTTATGCCGCCAGCGAAGGTGAGGTCGAACCGGGAACTTCCAGAAGATGGGAAGAAAGCCCTCGAATGATCTGGGATGAGTTTGAGGTGAAAATTGATTCCGAGAGCCGTGGTCGACTGGAGGAGCGGAGTAGGGTTACGTCGTACGAGATCGAATTGGAAGGCGAGAGCTTTATTGGAAACGTCGATCCCAGGGACAATGACTTAGACGAAGCTGCAAAGAACAGTCTCAGCTTCAGTCGAAATTCAGACGGAAATGATTGTTTCTTTACCGCTCTTGCTGATGACCCCGCGGATGCGGAATCAGTCGGCTCTAATTCAGTCGATCACAGTGGATCTTCCCCTTACCCTACGGCCCCATCGGATGGTTGTCCTAGCATACACGCGGAGATGGGGGACCTGATGCTTGCCTTTAATGCCTGGGATTCGTTTGAAGTCCATGACGAAGAAGAAAGCGAGGATGATGAACAATGGGAGGAGGTACTGGGAGAAGAGGCGGTTACTGGTGCCTCTGCTGATGATACTGCTGAGGTTAACTTCAACTTTGGATCCACCGAAGGAATTATCCTTCCGGCGGCCGAAGAAGAAGAAGGAGAAGAGCAGGTGTCCGATGCGGAGGATTCTCGCAGCCTGCCGTTACTAGAGCGATCGGAACTCGCAGGAATGATGCAGATGCTTGTTAATTTCAATTTAGAAGATGAGGATGTTGACGAGGAAGAGGATGACGACGGTGATGTATATTATGGAGTTCCGGAGGACTATGTTGACGCGGCAGGGTATGAAATTGTGCTCCAACACCAACATGAACATGAAAATTTTGCAGAAAATAATGATGATTTTCTGACAGGGGCTCCTCCTGCTTCCAAGGCTGCGGTAGAAAGCTTGCCATCAATTTGGATCGGTCAGAAAGATTTTGAACTTCTGTTAATGTGTGCGATCTGCAAGGATCCGCTTTCCGTGGGAGAGTTGGCAAAGCAGCTGCCTTGTCGGCATAGCTATCATGCGGATTGCATTCTTCCCTGGTTAATCTCTCGAAATTCATGCCCCTTATGTAGATACGAGCTTCCTACTGACGATCCCGCTTATGAAGAGCAGAGGAAACAGGGGGCATCCTTGCGAACATAATTTGCGCTGTGCAGGTTATCATTTGATCCCATCCCGTACCCGCTTTAATTTGTTTCCAAAAATATCTCTCAATTCTGTTTTCGGTTTCTTTCTTTCGCAATAATTTTAGAATGAACAGTCATTTGTATATTGTTTTGCCTTTTTGTGGACAGATGACCTCTCAACAATGGTATTCTCTTATATTATGTGTTGGCTGAAAACAACTTTTATTCTGTCCTATTTGTAGATATTCTTTTGAAGTACTCCAGATAAGATGCTGTTAAGAAATATGACTTGATCATATACAGGTACTGTGGGCTGTTTTGCTCAAGCAGTATTGTTAAGATTGATTTGATTGGGGGTAACGTTGGCAGTAACTCCAACCATAAAATATCTCAATAAAAACAATGTGAGTCTTTTTCTATCT

Ace file of the UniGene sp_v3.0_unigene4673

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	E3 ubiquitin-protein ligase CIP8 [Arabidopsis thaliana] sp\|Q9SPL2.1\|CIP8_ARATH RecName: Full=E3 ubiquitin-protein ligase CIP8; AltName: Full=COP1-interacting protein 8 gb\|AAD56636.1\|AF162150_1 COP1-interacting protein CIP8 [Arabidopsis thaliana] dbj\|BAA97	-	-	6.0e-26	47%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	74%

Source	Gene names
Sma3	At3g19950/MPN9_19; GSVIVT00021348001; GSVIVT00031582001; GSVIVT00032381001; GSVIVT00033631001; GSVIVT00037060001; MtrDRAFT_AC157503g6v2; Os06g0633500; Os08g0487500; OsI_23805; OsI_29676; OsI_34895; OsI_37259; OsJ_16849; OsJ_27734; P0028A08.16; P0481F05.37

Source	GOs	Term	Type	Identity
Sma3	chromosome	GO:0005694	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	DNA topoisomerase type I activity	GO:0003917	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	metal ion transmembrane transporter activity	GO:0046873	Molecular Function	-
Sma3	DNA topological change	GO:0006265	Biological Process	-
Sma3	DNA unwinding involved in replication	GO:0006268	Biological Process	-
Sma3	metal ion transport	GO:0030001	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	DNA topoisomerase, type IA	IPR000380	-	-
Sma3	Peptidase M14, carboxypeptidase A	IPR000834	-	-
Sma3	Cytochrome P450	IPR001128	-	-
Sma3	Zinc finger, RING-type	IPR001841	-	-
Sma3	Cytochrome P450, E-class, group I	IPR002401	-	-
Sma3	DNA topoisomerase, type IA, domain 2	IPR003601	-	-
Sma3	DNA topoisomerase, type IA, DNA-binding	IPR003602	-	-
Sma3	Zinc/iron permease	IPR003689	-	-
Sma3	DNA topoisomerase I, bacterial-type	IPR005733	-	-
Sma3		IPR006154	-	-
Sma3	Toprim domain	IPR006171	-	-
Sma3	Domain of unknown function DUF1117	IPR010543	-	-
Sma3	DNA topoisomerase, type IA, central	IPR013497	-	-
Sma3	DNA topoisomerase, type IA, zn finger	IPR013498	-	-
Sma3	DNA topoisomerase, type IA, central region, subdomain 1	IPR013824	-	-
Sma3	DNA topoisomerase, type IA, central region, subdomain 3	IPR013826	-	-
Sma3	Cytochrome P450, conserved site	IPR017972	-	-
Sma3		IPR017973	-	-
Sma3	Zinc finger, C3HC4 RING-type	IPR018957	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT5G64920.1	CIP8 COP1-interacting protein 8 chr5:25944338-25945342 REVERSE LENGTH=334	3.0e-30	47%
RefSeq	Arabidopsis thaliana	NP_201297.1	E3 ubiquitin-protein ligase CIP8 [Arabidopsis thaliana]	4.0e-30	47%
RefSeq	Populus trichocarpa	XP_002322048.1	predicted protein, partial [Populus trichocarpa]	2.0e-29	53%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: B8LNA0

Fln msg: your sequence is longer than subject: 535 - 97

Fln protein: MEEARAPSYWWCYECRKEVTPEPGVALELNLNLNSNPNPVCCLCQEGFLERIYASSSVAAGIGIGSGNPHESRLLWNEPPQSLYFHDFFGVIRSSPYRALSLDNHDRDHNYSNEGEGERAVDYLDCFSDGIDSNGHFLPEGRIVEEEEEQLWENLGVSENFYAASEGEVEPGTSRRWEESPRMIWDEFEVKIDSESRGRLEERSRVTSYEIELEGESFIGNVDPRDNDLDEAAKNSLSFSRNSDGNDCFFTALADDPADAESVGSNSVDHSGSSPYPTAPSDGCPSIHAEMGDLMLAFNAWDSFEVHDEEESEDDEQWEEVLGEEAVTGASADDTAEVNFNFGSTEGIILPAAEEEEGEEQVSDAEDSRSLPLLERSELAGMMQMLVNFNLEDEDVDEEEDDDGDVYYGVPEDYVDAAGYEIVLQHQHEHENFAENNDDFLTGAPPASKAAVESLPSIWIGQKDFELLLMCAICKDPLSVGELAKQLPCRHSYHADCILPWLISRNSCPLCRYELPTDDPAYEEQRKQGASLRT*

Protein Length: 536

Fln nts: TCAATTTTGGCCAACGTGCTTGAGGAGGATGCACTGAAACTGTACACTCTTATATGGTGCCGAACAATGGCTTGTCAAATGAGTGAGGCTGAAATAAGTCAGATATCAGTGATCTTTGGGAATGAAGATGAATCTCTTTTGCTTCGATCAAGTGCTTCAGCTATCTCGTTTCCTGGATATTTAGCTGTATTCAAGGACAATGAAACTCGCAGCGTGTGCACAGTTTGGAATCGCAGGACGCCACCGTGGTCTGTGTCTGAGGGGTAAGGTAAGCTATTGGTATTGGTGTGTAGGCACAG_-_ATGGAGGAGGCGAGGGCCCCCTCGTACTGGTGGTGCTACGAATGCAGAAAGGAGGTTACGCCAGAGCCTGGGGTGGCCCTCGAACTCAATCTCAATCTGAACTCGAACCCGAACCCGGTCTGCTGCCTTTGCCAAGAAGGTTTCTTGGAGCGAATCTATGCATCATCATCAGTTGCAGCTGGAATTGGAATTGGAAGTGGAAACCCCCATGAAAGCCGTCTTCTCTGGAATGAACCGCCCCAAAGCCTCTACTTCCACGATTTCTTTGGGGTTATCCGTTCCTCGCCTTACAGAGCCCTGTCCCTGGATAATCATGATCGCGATCACAATTACTCTAATGAAGGTGAGGGAGAGAGGGCTGTCGATTATTTGGACTGCTTCTCTGACGGGATTGATTCTAATGGCCACTTCTTGCCGGAAGGCCGAATCGTAGAAGAAGAAGAGGAGCAGCTATGGGAAAATCTGGGCGTTTCCGAGAATTTTTATGCCGCCAGCGAAGGTGAGGTCGAACCGGGAACTTCCAGAAGATGGGAAGAAAGCCCTCGAATGATCTGGGATGAGTTTGAGGTGAAAATTGATTCCGAGAGCCGTGGTCGACTGGAGGAGCGGAGTAGGGTTACGTCGTACGAGATCGAATTGGAAGGCGAGAGCTTTATTGGAAACGTCGATCCCAGGGACAATGACTTAGACGAAGCTGCAAAGAACAGTCTCAGCTTCAGTCGAAATTCAGACGGAAATGATTGTTTCTTTACCGCTCTTGCTGATGACCCCGCGGATGCGGAATCAGTCGGCTCTAATTCAGTCGATCACAGTGGATCTTCCCCTTACCCTACGGCCCCATCGGATGGTTGTCCTAGCATACACGCGGAGATGGGGGACCTGATGCTTGCCTTTAATGCCTGGGATTCGTTTGAAGTCCATGACGAAGAAGAAAGCGAGGATGATGAACAATGGGAGGAGGTACTGGGAGAAGAGGCGGTTACTGGTGCCTCTGCTGATGATACTGCTGAGGTTAACTTCAACTTTGGATCCACCGAAGGAATTATCCTTCCGGCGGCCGAAGAAGAAGAAGGAGAAGAGCAGGTGTCCGATGCGGAGGATTCTCGCAGCCTGCCGTTACTAGAGCGATCGGAACTCGCAGGAATGATGCAGATGCTTGTTAATTTCAATTTAGAAGATGAGGATGTTGACGAGGAAGAGGATGACGACGGTGATGTATATTATGGAGTTCCGGAGGACTATGTTGACGCGGCAGGGTATGAAATTGTGCTCCAACACCAACATGAACATGAAAATTTTGCAGAAAATAATGATGATTTTCTGACAGGGGCTCCTCCTGCTTCCAAGGCTGCGGTAGAAAGCTTGCCATCAATTTGGATCGGTCAGAAAGATTTTGAACTTCTGTTAATGTGTGCGATCTGCAAGGATCCGCTTTCCGTGGGAGAGTTGGCAAAGCAGCTGCCTTGTCGGCATAGCTATCATGCGGATTGCATTCTTCCCTGGTTAATCTCTCGAAATTCATGCCCCTTATGTAGATACGAGCTTCCTACTGACGATCCCGCTTATGAAGAGCAGAGGAAACAGGGGGCATCCTTGCGAACATAA___TTTGCGCTGTGCAGGTTATCATTTGATCCCATCCCGTACCCGCTTTAATTTGTTTCCAAAAATATCTCTCAATTCTGTTTTCGGTTTCTTTCTTTCGCAATAATTTTAGAATGAACAGTCATTTGTATATTGTTTTGCCTTTTTGTGGACAGATGACCTCTCAACAATGGTATTCTCTTATATTATGTGTTGGCTGAAAACAACTTTTATTCTGTCCTATTTGTAGATATTCTTTTGAAGTACTCCAGATAAGATGCTGTTAAGAAATATGACTTGATCATATACAGGTACTGTGGGCTGTTTTGCTCAAGCAGTATTGTTAAGATTGATTTGATTGGGGGTAACGTTGGCAGTAACTCCAACCATAAAATATCTCAATAAAAACAATGTGAGTCTTTTTCTATCT

Fln Alignment:

Contig4673___LLMCAICKDPLSVGELAKQLPCRHSYHADCILPWLISRNSCPLCRY-----ELPTDDPAYEEQRKQGASLR
B8LNA0______________VIMCAICMDSLSVGELVKRLPCLHRYHVDCILPLLSSRNLCPLCRYELPTNELPTDDPAYEEQRKQGASSR

SNPs (tot: 17)

Position	A %	C %	G %	T %	Probability
255	20		80		0.995493
287		14		85	0.993533
812			88	11	0.923564
1047		10		90	0.90298
1226	88			11	0.923564
1253	11		88		0.923564
1254		11	88		0.923564
1256			77	11	0.968132
1257			88	11	0.923564
1267	11		88		0.923564
1270	88			11	0.923564
1337	87		12		0.992554
1805	93	6			0.999264
1919	20		80		0.995493
2078		20		80	0.995493
2249		75		25	0.996473
2284	80			20	0.995493

SSRs (tot: 2)

Start position	End position	Sequence	Length
731	742	AGA AGA AGA AGA	12
1359	1371	GAA GAA GAA GAA G	13

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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