SustainPineDB

Assembly Name: SustainPine v1.1

UniGene Name: sp_v1.1_unigene16455

Length: 2100 nt

Origin of reads: Biogeco_1 Biogeco_2 Uagpf Uma

UniGene Fasta

>sp_v1.1_unigene16455
TCAATGCCCAGAAAAATTGCTTCAAGTCTCTGTACAGTTTATTAATAATGGGGATAAAAATACTAGCTGTATGTGCACCAAACTACGAGCTCAATCGTGCGGAATCCACGTTAAGGGGAAAGGGCGATGATGATGAGGGCTTGGGTGGATAAAACCACTGAGGAGGCATCCGCTTGGTTCCCAGATCTTTGAAATGCAGTAAAAAGATTAGCAGAGGTCTCTGCATATTTCGGCTATGTGGCCTGTTTGATATGTTAGATGGTTTCTGGGTTGATTTGATCGGAGATTCAAACCCTGGAGCTATAGAAAATCACTGCAGATATGTATAAGAATCAGCTTCAGGAGCTGGCACAGAGGAGCTGCTTCAACCTGCCATCATATGGGTGTATCAGAGAAGGGCCAGACCATGCTCCGAGATTACAAAGCCACTGTGTAACTTTAATGGAGAGATTCTTTGAAAGTCCCAACTATTGCAGTACTCTGAGACAGGCCGAACATTCTGCTGCAGAGGTTGCGCTCAGTACATTGTCAAGGAGAGGACCGTCTAGGTCTTTGGCTGCTAAAGTCCTGGATGAGACTGGAGTGTACAAGAATTTGTTGCAGGAGACTGCCCACAGAGCGGGTTTGAGTCTTCCTGTGTATACTACAACCCGTTCAGGGCCTGGTCATTTGCCTGTTTTTAAATGCAGTGTAGACCTTGCTGGATTGAGATTCTATGGGGAGACTGCTAAGACGAAGAAGCAAGCTGAGAAGAATGCTGCAATGGCTGCCTGGTCGGCTCTCAAACAATTATCACAGTTGAGTGGATTGTGCTCTTCTTCCTGTGACAGTGAGAGCAGTGAAGAGCAAGAACAGATTACCATTGCTAGAGTTTTGGCAAATCTCTGTAAGGATGAGATAGGTAGGGTTTCCCAGCAGCAGAGGAGGAAACTGCCTGCTCAGAGGGATAAAAGTGCTGCTGTTTCGGCATATTCTCAGCAGTATGTGCACTCAGAATTAGTACCGAGATTTCAGGTCCATCAGCCCCCTGCTCCACCTCCTGCTTCTAAATTCCTGCCATTCATACGTTCGATATTTCCTCAAAAAACCCAACAACAAGAACAATCTACAGGCCCCGGGATTACTTCGACACGGCCATCACCAGTCCCCAGGGAGTCCTATAATGTGTTTAACAAGAAGACCGAAATCTGCCATTTGCCCATCTGTCCCCATGAATAATAATACTGCAATCGCGGACATCTGCCAGCCTCCTCCAGTGAGGTTGCCAATCACTAGAAGTGAAAGACAGGAGATTCCAATTCCTTTGGAGGAACACCAACGAGATGAAGATGAATGGCTTCACGGTGCTGACACTTCAAGCAGAGATCAAAATGCTGCAATTCAAGGCTACCAATTGATCGATTGGAGAAATTCTGCATTTGGGTCCGGAAATACTTCATCTAGATCGTCTTATTCAATGCAAATTCCTCAGAATTTCAGTTATAGAAATCCAAATCTTAGTGCCATCCAACAACAGCAATCAACAACCTATAGAAGTAGCCCCAGTTCTTCTGATTCCAGATGCCTAAGGCCTCTAGCATCAAGGGCTTCACCTGTGAGAATTAGGTCTGCGGTTCCAGTCTACTCAGCCCCCCCTGCACCTAGAAGGATTAGGCCTGAAGATGCACAACAGACTCTGGCTTCAAACTTTGCTATCACATCTCTGAATCCAGCACCTGCTGTCTGCATTAGGTCTGTAATACCTGTCTGCTCAGCTCCTGGGCGACCCTCATGCGACCGAGGTGAACAGCACGCGGAATCAATCAATCATGGAGAAGCTGATGGAAATGAATGCGGTGAGCGGCAGGGTGCAGTTGATGATGATGTTAATGCAAGCAAACTGAGACTGAGCCAGCTTCAGCTCTGACCCAGCGAACTCTGATAAGCATTGTTACAGTGTTATATGCTAATCAAATGTGTGCTCTTCTGCACTTCTTAATGAGCCTAAACCATTTTTTGTCTATCCATTGATACGAGTTTCTCATCTTTCAACATACTTCATCTTAATTTCTTTTGCAGGAGGAAAATCATATTTAGATAGTACTGTATTTTCCTACGTTT

Ace file of the UniGene sp_v1.1_unigene16455

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	Double-stranded RNA binding protein, putative n=1 Tax=Ricinus communis RepID=B9RH31_RICCO	-	-	58%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	77%
Blast2go	double-stranded rna binding protein	-	-	79%

Source	GOs	Term	Type	e value	Identity
Blast2go	double-stranded RNA binding	GO:0003725	Molecular Function	0.0	79%
Blast2go	mitochondrion	GO:0005739	Cellular Component	0.0	79%

Source	InterPros	Term	Type	e value	Identity
Blast2go	Double-stranded RNA-binding	IPR001159	-	0.0	79%
Blast2go	Double-stranded RNA-binding-like	IPR014720	-	0.0	79%

Full-Lengther Next Prediction

Fln status: Putative Complete

Fln database: coniferopsida.fasta

Fln subject: B8LM70

Fln msg: query STOP codon too far from subject stop. Distance to subject end: 90 aas, putative chimeric sequence, your sequence is shorter than subject: 299 - 388

Fln protein: MYKNQLQELAQRSCFNLPSYGCIREGPDHAPRLQSHCVTLMERFFESPNYCSTLRQAEHSAAEVALSTLSRRGPSRSLAAKVLDETGVYKNLLQETAHRAGLSLPVYTTTRSGPGHLPVFKCSVDLAGLRFYGETAKTKKQAEKNAAMAAWSALKQLSQLSGLCSSSCDSESSEEQEQITIARVLANLCKDEIGRVSQQQRRKLPAQRDKSAAVSAYSQQYVHSELVPRFQVHQPPAPPPASKFLPFIRSIFPQKTQQQEQSTGPGITSTRPSPVPRESYNVFNKKTEICHLPICPHE*

Protein Length: 300

Fln nts: TCAATGCCCAGAAAAATTGCTTCAAGTCTCTGTACAGTTTATTAATAATGGGGATAAAAATACTAGCTGTATGTGCACCAAACTACGAGCTCAATCGTGCGGAATCCACGTTAAGGGGAAAGGGCGATGATGATGAGGGCTTGGGTGGATAAAACCACTGAGGAGGCATCCGCTTGGTTCCCAGATCTTTGAAATGCAGTAAAAAGATTAGCAGAGGTCTCTGCATATTTCGGCTATGTGGCCTGTTTGATATGTTAGATGGTTTCTGGGTTGATTTGATCGGAGATTCAAACCCTGGAGCTATAGAAAATCACTGCAGAT_-_ATGTATAAGAATCAGCTTCAGGAGCTGGCACAGAGGAGCTGCTTCAACCTGCCATCATATGGGTGTATCAGAGAAGGGCCAGACCATGCTCCGAGATTACAAAGCCACTGTGTAACTTTAATGGAGAGATTCTTTGAAAGTCCCAACTATTGCAGTACTCTGAGACAGGCCGAACATTCTGCTGCAGAGGTTGCGCTCAGTACATTGTCAAGGAGAGGACCGTCTAGGTCTTTGGCTGCTAAAGTCCTGGATGAGACTGGAGTGTACAAGAATTTGTTGCAGGAGACTGCCCACAGAGCGGGTTTGAGTCTTCCTGTGTATACTACAACCCGTTCAGGGCCTGGTCATTTGCCTGTTTTTAAATGCAGTGTAGACCTTGCTGGATTGAGATTCTATGGGGAGACTGCTAAGACGAAGAAGCAAGCTGAGAAGAATGCTGCAATGGCTGCCTGGTCGGCTCTCAAACAATTATCACAGTTGAGTGGATTGTGCTCTTCTTCCTGTGACAGTGAGAGCAGTGAAGAGCAAGAACAGATTACCATTGCTAGAGTTTTGGCAAATCTCTGTAAGGATGAGATAGGTAGGGTTTCCCAGCAGCAGAGGAGGAAACTGCCTGCTCAGAGGGATAAAAGTGCTGCTGTTTCGGCATATTCTCAGCAGTATGTGCACTCAGAATTAGTACCGAGATTTCAGGTCCATCAGCCCCCTGCTCCACCTCCTGCTTCTAAATTCCTGCCATTCATACGTTCGATATTTCCTCAAAAAACCCAACAACAAGAACAATCTACAGGCCCCGGGATTACTTCGACACGGCCATCACCAGTCCCCAGGGAGTCCTATAATGTGTTTAACAAGAAGACCGAAATCTGCCATTTGCCCATCTGTCCCCATGAATAA___TAATACTGCAATCGCGGACATCTGCCAGCCTCCTCCAGTGAGGTTGCCAATCACTAGAAGTGAAAGACAGGAGATTCCAATTCCTTTGGAGGAACACCAACGAGATGAAGATGAATGGCTTCACGGTGCTGACACTTCAAGCAGAGATCAAAATGCTGCAATTCAAGGCTACCAATTGATCGATTGGAGAAATTCTGCATTTGGGTCCGGAAATACTTCATCTAGATCGTCTTATTCAATGCAAATTCCTCAGAATTTCAGTTATAGAAATCCAAATCTTAGTGCCATCCAACAACAGCAATCAACAACCTATAGAAGTAGCCCCAGTTCTTCTGATTCCAGATGCCTAAGGCCTCTAGCATCAAGGGCTTCACCTGTGAGAATTAGGTCTGCGGTTCCAGTCTACTCAGCCCCCCCTGCACCTAGAAGGATTAGGCCTGAAGATGCACAACAGACTCTGGCTTCAAACTTTGCTATCACATCTCTGAATCCAGCACCTGCTGTCTGCATTAGGTCTGTAATACCTGTCTGCTCAGCTCCTGGGCGACCCTCATGCGACCGAGGTGAACAGCACGCGGAATCAATCAATCATGGAGAAGCTGATGGAAATGAATGCGGTGAGCGGCAGGGTGCAGTTGATGATGATGTTAATGCAAGCAAACTGAGACTGAGCCAGCTTCAGCTCTGACCCAGCGAACTCTGATAAGCATTGTTACAGTGTTATATGCTAATCAAATGTGTGCTCTTCTGCACTTCTTAATGAGCCTAAACCATTTTTTGTCTATCCATTGATACGAGTTTCTCATCTTTCAACATACTTCATCTTAATTTCTTTTGCAGGAGGAAAATCATATTTAGATAGTACTGTATTTTCCTACGTTT

Fln Alignment:

sp_v1.1_unigene16455___MYKNQLQELAQRSCFNLPSYGCIREGPDHAPRLQSHCVTLMERFFESPNYCSTLRQAEHSAAEVALSTLSRRGPSRSLAAKVLDETGVYKNLLQETAHRAGLSLPVYTTTRSGPGHLPVFKCSVDLAGLRFYGETAKTKKQAEKNAAMAAWSA
B8LM70_______________MYKNQLQELAQRNCFNLPLYGCIRKGPDHAPRFRA-TVNFNGEIFESPNYCSTLRQAELVAAEVAVNTLSKRGPSGSLVAKDLDDTGVYKNLLQEIAHRAGLSLPVYTTTRSGPAHLPVFKCIVDVFGTRFNGKPAATKKQAEQNTAMAAWSA

SNPs (tot: 95)

Position	A %	C %	G %	T %	Probability
68	33	66			0.997452
71			33	66	0.997452
72	66		33		0.997452
73			33	66	0.997452
90	33		66		0.997452
165	60	40			1.0
167			60	40	1.0
169	60		40		1.0
171		60	40		1.0
172	40	60			1.0
173		40	60		1.0
204	83	16			0.994512
207	83	16			0.994512
208	83		16		0.994512
209	83			16	0.994512
210	83		16		0.994512
212		16	83		0.994512
213	83	16			0.994512
221	83	16			0.994512
222			83	16	0.994512
226	16			83	0.994512
289	16		83		0.994512
574		66	33		0.997452
576		33	66		0.997452
583	66	33			0.997452
586			66	33	0.997452
588	66		33		0.997452
589		33	66		0.997452
596	66	33			0.997452
597			66	33	0.997452
598	66	33			0.997452
657	33	66			0.997452
741	33		66		0.997452
790	66	33			0.997452
1001	71			28	1.0
1005	71	28			1.0
1008	71		28		1.0
1011		12		87	0.992554
1013	62			37	1.0
1015	25	62		12	1.0
1016		25	75		1.0
1017	75			25	1.0
1018		37	62		1.0
1019	87	12			0.992554
1022			12	87	0.992554
1023		87	12		0.992554
1024	87	12			0.992554
1025			87	12	0.992554
1029	10	90			0.90298
1033	90			10	0.90298
1038		90		10	0.90298
1039		90		10	0.90298
1040			10	90	0.90298
1044		90		10	0.90298
1051	10	90			0.90298
1189	84	15			0.999986
1191	84			15	0.999986
1193		84		15	0.999986
1196	84	15			0.999986
1197	84	15			0.999986
1202		84	15		0.999986
1204	83			16	0.999991
1205			16	83	0.999991
1207		16		83	0.999991
1208	16		83		0.999991
1211		50		50	1.0
1215	25			75	0.996473
1218	25		75		0.996473
1372	87	12			0.992554
1374		87		12	0.992554
1375	87	12			0.992554
1377	87			12	0.992554
1380		12		87	0.992554
1382	87			12	0.992554
1383	87		12		0.992554
1384	87		12		0.992554
1385	87	12			0.992554
1389		12		87	0.992554
1390			87	12	0.992554
1557	11	88			0.923564
1651			85	14	0.993533
1653	85		14		0.993533
1655	14	85			0.993533
1656			14	85	0.993533
1657	85			14	0.993533
1660	85		14		0.993533
1661			85	14	0.993533
1665		14		85	0.993533
1676	85		14		0.993533
1682	85		14		0.993533
1720	85	14			0.993533
1721	85		14		0.993533
1724		85	14		0.993533
1725	85			14	0.993533
1848	15		76	7	0.999983

SSRs (tot: 1)

Start position	End position	Sequence	Length
1797	1809	AATC AATC AATC A	13

Back

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