SustainPineDB

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene4713

Length: 2056 nt

Origin of reads: Biogeco1 v2 Biogeco2 v2 Biogeco3 v1 Uagpf v2 Uma v2

This UniGene was originaly assembled in antisense
ACE File: antisense
Fasta: sense

UniGene Fasta (sense)

>sp_v2.0_unigene4713
AATGTATTGCTACAAGGATGAAGAAGAAGAACGAGGAGGAGGAGATCATCGATGACAGCAATGAAAATGAAGTTGCGAATGGAATCGAAAACAAGGGTAGGAAGGAAAAGAAAAAGGAGCAGAAACAGAGTAAGGACAGTGAAGTGAGCGTTTCTGGGAAAGGAAGTGAAGATGCAAAGTACAGAACCTTGCAATCGTTCGAGGAGGCCGGGCTTCCAGAGAATGTGCTGCAGTGCTGTAAAAATTTTAAAAACCATCACCCATTCAGGCACATGCCTGGCCCTTTCTTCTCGATGGCAGAGACTTCATTGGCATAGCGGCCACTGGATCAGGGAAAACAATAGCATTTGGGGTCCCAGCATTAATACACATATTGAGAAAGGAGAATAGAAAGATAATGAGAAAATCTTTGCCATATTGTCTTGTTCTTTCACCTACAAGAGAGCTTGCTCAACAAATTGCGGATGTTTTGGCTGATGCTGGAGATTCCTGCGGAGTGAAATCTGTTTGCCTGTATGGTGGTACCTCTAAGGGACAACAGATTTCTGCTATGAAGTCTGGAGTGGACATTGTTGTTGCTACTCCAGGGCGTTTGAAGGACTTAATGGACAGCGGCTTCTGTGACCTTAGTGAGGCTTCCTTTGTGGTATTAGATGAAGCAGATCGAATGCTTGACTTGGGATTTGAACCAGAAGTTCGTGCAATATTGAGCCAGACTTCATCTTCTCGGCAAACAGTTATGTTTAGTGCAACTTGGCCAGTAGCTGTACATCAATTGGCCAAAGAGTTTATGGACCCAAATCCTATAAAGGTGGTTGTTGGGTCACAGGATTTGGCTGCAAATCATGATGTCATGCAAATAGTGGAGGTTTTGGATGATCGGGCAAGAGACATGCGATTGGTAAACTTGCTTGAGAAATACCATCAGTCTCGAAGGAACCGTGTACTTGTCTTTGTCTTATATAAGAAAGAAGCAGAGAGAGTGGAGTCAATGCTTCAAAGAAGAGGATGGAATGTTGTTGCGGTTCATGGTGACAAATCTCAACATGAGCGTACAAAATCGGTCACCTTATTCAAGGATGGGAAGTGTCCCCTACTGATTGCCACAGACGTTGCTGCAAGAGGTCTTGATATTCCAGATGTGGAAGTTGTGATTAACTACAGTTTCCCTCTTACAACAGAGGACTATGTGCATCGTATAGGCAGGACTGGACGAGCTGGGAAAAAGGGTGTTGCACATACTTTCTTTACTCTAGCGGACAAGGCTCGTTCTGGAGAGCTTGTAAATGTTCTTAGAGAAGCTGGACAGGTGGTACCAGATGATCTCCTAAAATTTGGAACGCATATAAAGAAGAAGGAATCTAAATTATATGGGGCGCACTTCAAAGAAATTTCTGCCAATGCTCCAAAGTCGACAAAGATTACATTTGCAGACTCTGATGATGAATAAAAGGCGACTGTCTCTTGGGTTTACTTTTTCTTAAAGTTATAACATGGAAATTCTGATGGTCAAAGGCTTTGGAAAGTCACCTTAGAAATTTCAGGTCTAGTATAAGAAGATTTTGCTTCCCTTTGGAGATGTCAATCTGACAATCAGAAGGAACAGGAGTATTTTGGCTTTACAGAAGGCTGCCTTGCATTAAAGCAAGAAAGTATTGAATATCATCGTATGAGGCCAGGTTAATAGTTGCTACATCACTATAATGCAACTGCAGTATCATAATTTTTTTGGTCTCCACCAATTCTTTTGAGCGATGTCTCTCTGGGATGATACATCCCCACATTGATTAAGTTGATTCATCCCTTGTTGAAATTCTAGATTGTGCTTGAAGGTTATTGAAGTACATGCACCAGAAGTTGGAGTCAGCTTATTTGGTGTTTTTGATCCCCATGAAAAACATCTGTGTCTCCTTTATGGTTATAGATATTTGTATGCATGACATTTGATGTATAGCAACTATATGAATTCATAGTGCTCAATGTATTTCCTTTACCTTGATCTATAATAATTTTCAAATGATTATCATGCATAATGTGCCCATGCACCACAATTTTT

Ace file of the UniGene sp_v2.0_unigene4713 (antisense)

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	DEAD-box ATP-dependent RNA helicase 5 n=2 Tax=Oryza sativa RepID=RH5_ORYSJ	-	-	79%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	95%
Blast2go	rna helicase	-	-	88%

Source	GOs	Term	Type	Identity
Blast2go	nucleic acid binding	GO:0003676	Molecular Function	88%
Blast2go	ATP binding	GO:0005524	Molecular Function	88%
Blast2go	zinc ion binding	GO:0008270	Molecular Function	88%
Blast2go	ATP-dependent helicase activity	GO:0008026	Molecular Function	88%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: D5AB12

Fln msg: your sequence is longer than subject: 351 - 236

Fln protein: MRKSLPYCLVLSPTRELAQQIADVLADAGDSCGVKSVCLYGGTSKGQQISAMKSGVDIVVATPGRLKDLMDSGFCDLSEASFVVLDEADRMLDLGFEPEVRAILSQTSSSRQTVMFSATWPVAVHQLAKEFMDPNPIKVVVGSQDLAANHDVMQIVEVLDDRARDMRLVNLLEKYHQSRRNRVLVFVLYKKEAERVESMLQRRGWNVVAVHGDKSQHERTKSVTLFKDGKCPLLIATDVAARGLDIPDVEVVINYSFPLTTEDYVHRIGRTGRAGKKGVAHTFFTLADKARSGELVNVLREAGQVVPDDLLKFGTHIKKKESKLYGAHFKEISANAPKSTKITFADSDDE*

Protein Length: 352

Fln nts: AATGTATTGCTACAAGGATGAAGAAGAAGAACGAGGAGGAGGAGATCATCGATGACAGCAATGAAAATGAAGTTGCGAATGGAATCGAAAACAAGGGTAGGAAGGAAAAGAAAAAGGAGCAGAAACAGAGTAAGGACAGTGAAGTGAGCGTTTCTGGGAAAGGAAGTGAAGATGCAAAGTACAGAACCTTGCAATCGTTCGAGGAGGCCGGGCTTCCAGAGAATGTGCTGCAGTGCTGTAAAAATTTTAAAAACCATCACCCATTCAGGCACATGCCTGGCCCTTTCTTCTCGATGGCAGAGACTTCATTGGCATAGCGGCCACTGGATCAGGGAAAACAATAGCATTTGGGGTCCCAGCATTAATACACATATTGAGAAAGGAGAATAGAAAGATA_-_ATGAGAAAATCTTTGCCATATTGTCTTGTTCTTTCACCTACAAGAGAGCTTGCTCAACAAATTGCGGATGTTTTGGCTGATGCTGGAGATTCCTGCGGAGTGAAATCTGTTTGCCTGTATGGTGGTACCTCTAAGGGACAACAGATTTCTGCTATGAAGTCTGGAGTGGACATTGTTGTTGCTACTCCAGGGCGTTTGAAGGACTTAATGGACAGCGGCTTCTGTGACCTTAGTGAGGCTTCCTTTGTGGTATTAGATGAAGCAGATCGAATGCTTGACTTGGGATTTGAACCAGAAGTTCGTGCAATATTGAGCCAGACTTCATCTTCTCGGCAAACAGTTATGTTTAGTGCAACTTGGCCAGTAGCTGTACATCAATTGGCCAAAGAGTTTATGGACCCAAATCCTATAAAGGTGGTTGTTGGGTCACAGGATTTGGCTGCAAATCATGATGTCATGCAAATAGTGGAGGTTTTGGATGATCGGGCAAGAGACATGCGATTGGTAAACTTGCTTGAGAAATACCATCAGTCTCGAAGGAACCGTGTACTTGTCTTTGTCTTATATAAGAAAGAAGCAGAGAGAGTGGAGTCAATGCTTCAAAGAAGAGGATGGAATGTTGTTGCGGTTCATGGTGACAAATCTCAACATGAGCGTACAAAATCGGTCACCTTATTCAAGGATGGGAAGTGTCCCCTACTGATTGCCACAGACGTTGCTGCAAGAGGTCTTGATATTCCAGATGTGGAAGTTGTGATTAACTACAGTTTCCCTCTTACAACAGAGGACTATGTGCATCGTATAGGCAGGACTGGACGAGCTGGGAAAAAGGGTGTTGCACATACTTTCTTTACTCTAGCGGACAAGGCTCGTTCTGGAGAGCTTGTAAATGTTCTTAGAGAAGCTGGACAGGTGGTACCAGATGATCTCCTAAAATTTGGAACGCATATAAAGAAGAAGGAATCTAAATTATATGGGGCGCACTTCAAAGAAATTTCTGCCAATGCTCCAAAGTCGACAAAGATTACATTTGCAGACTCTGATGATGAATAA___AAGGCGACTGTCTCTTGGGTTTACTTTTTCTTAAAGTTATAACATGGAAATTCTGATGGTCAAAGGCTTTGGAAAGTCACCTTAGAAATTTCAGGTCTAGTATAAGAAGATTTTGCTTCCCTTTGGAGATGTCAATCTGACAATCAGAAGGAACAGGAGTATTTTGGCTTTACAGAAGGCTGCCTTGCATTAAAGCAAGAAAGTATTGAATATCATCGTATGAGGCCAGGTTAATAGTTGCTACATCACTATAATGCAACTGCAGTATCATAATTTTTTTGGTCTCCACCAATTCTTTTGAGCGATGTCTCTCTGGGATGATACATCCCCACATTGATTAAGTTGATTCATCCCTTGTTGAAATTCTAGATTGTGCTTGAAGGTTATTGAAGTACATGCACCAGAAGTTGGAGTCAGCTTATTTGGTGTTTTTGATCCCCATGAAAAACATCTGTGTCTCCTTTATGGTTATAGATATTTGTATGCATGACATTTGATGTATAGCAACTATATGAATTCATAGTGCTCAATGTATTTCCTTTACCTTGATCTATAATAATTTTCAAATGATTATCATGCATAATGTGCCCATGCACCACAATTTTT

Fln Alignment:

Contig4713___MFSATWPVAVHQLAKEFMDPNPIKVVVGSQDLAANHDVMQIVEVLDDRARDMRLVNLLEKYHQSRRNRVLVFVLYKKEAERVESMLQRRGWNVVAVHGDKSQHERTKSVTLFKDGKCPLLIATDVAARGLDIPDVEVVINYSFPLTTEDYVHRIGRTGRAGKKGVAHTFFTLADKARSGELVNVLREAGQVVPDDLLKFGTHIKKKESKLYGAHFKEISANAPKSTKITFADSDDE
D5AB12______________MFSATWPVAVHQLAKEFMDPNPIKVVVGSQDLAANHDVMQIVEVLEDRTRDMRLVSLLDKYHQSRRNRVLVFVLYKKEAVRVESMLQRRGWNVVAVHGDKSQHDRTKAVTLFKDGKCPLLIATDVAARGLDIPDVEVVINYSFPLTTEDYVHRIGRTGRAGKKGVAHTFFTQADKARSGELVNVLREAGQVVPDDLLKFGTHVKKKESKLYGAHFKEITANAPKSTKITFADSDDE

SNPs (tot: 19)

Position	A %	C %	G %	T %	Probability
1849		87		12	0.992554
1930	14			85	0.993533
1932	14			85	0.993533
1933			85	14	0.993533
1937	16	83			0.994512
1938		16		83	0.994512
1939	16		83		0.994512
1940		83		16	0.994512
1995			16	66	0.988813
2000	16		83		0.994512
2002	16			83	0.994512
2003			83	16	0.994512
2036	33	66			0.997452
2037			33	66	0.997452
2038		33		66	0.997452
2039	33		33		0.997753
2041	66			33	0.997452
2042			33	66	0.997452
2043		66		33	0.997452

SSRs (tot: 2)

Start position	End position	Sequence	Length
2013	2024	CTC CTC CTC CTC	12
2026	2037	TTC TTC TTC TTC	12

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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