SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene1224

Length: 2884 nt

UniGene Fasta

>sp_v3.0_unigene1224
ACCCGCTTCCATTCCTGAAAATGACCAGTTTACACACAGTTCCTAAAATACCCACAAAAATATGAATTTTAACATCTTGAAATGGTTTATACGCCCACAATCTCTCTCGGGAATTCTTAAATGATGTGCCTAACCTAAGATATTCTTGAAAGAAAAGTTTTTTTTTTTTTTTTTGTTCACAGCAATAGGGTAAGCAGTAGTCTTCACGACTGTGACTGGAGCTTGCAATCAACAGAAGTCTGTTATCGAAGGAGGGGGGGATCGGCAGTAAGGCACCGCTTCAATGGTGGAGGAGATAGGCGGTTCGAATCCTCTTTGCGACGATGGTGAAGCAACAAACGGCGCAGTCGGCAGTGCTAATAAATTAAAGAAAAGGAAGAAAATTCGGAAGAGAAACGAAGACGGTTCAGAGGAACCCAAGAACGGCGGCGAAGTTGAAAGCAATGGAGTCAACGGCTGTGATGAAACAAACGGTGAAGGATTTAGCGAAGCAAAAAAAGAGAAGAAAAAGAAAAACAAGAGGAAAAATGCGCCTGATGTTGTAGATGAGCAACGGGGTGGCGAACAAAAACATCAGGAGAGTGAAGATATTGACGAGTTAAACAATGGTGGCGATAAAAAAGCTGAGAAGAAGAAGGCCAAAAAGATAAAATTCTCCATCGAGAAGCTCGAAGGAGGTACTGCAGAGGTTTCGGGTATCATGAGCGCTGTTTCGTTTGGCACACTAAAGCTGTCGGAGCCGACCATTAATGCTATTAAAGATATGGGGTTTGAGAGCATGACAGAGATTCAGGCCAGATCCATTCCAGAGCTCCTGAAAGGTTCCAATGTCTTGGGAGCTGCAAGGACTGGCTCAGGGAAGACACTTGCATTTTTAATTCCAGCTGTGGAACTGTTATACCATATATGTTTTACACCCCGCAATGGTACTGGTGTGATCATTATTTCCCCAACTCGAGAGCTTGCCATGCAGATATATGGTGTGGCAAAGGATCTCATGAAATACCATAAACAGACTCATGGTTTAGTTATAGGAGGTGCTGCACGTAGAGTTGAGGCAGAGCGACTTGCTAAAGGAGTAAACCTATTGGTTGGCACTCCTGGTAGACTTCTGGACCATCTTCAGAACACCAAAGGCTTTATATATAAGAATCTAAAGTACCTTGTTATCGATGAAGCTGATCGTATTCTGGAGATAGGTTTTGAGGAGGAAATGAAGCAAATTATTAAACTTCTTCCGAAGGATCGTCAAACTGCCCTTTTTTCTGCGACACAAACAACAAAGGTAGAAGATCTTGCACGTGTCTCATTTAGAACAGCTCCCAAGTACATTGGAGTGGATGATGGGAGATCTAAGGCGACAGTAGAAGGCTTAGAGCAAGGCTATTGTGTTGTGCCAAGTGCAAAGAGATTTCTTCTTTTATTCACATTTTTGAAGAAAAACAAGTCAAAAAAGATTATGGTCTTCTTTTCTTCTTGTAACTCAGTAAAATTCCACAGCGAGCTTCTCAACTACATTGACATGCCATGCCTTGATATTCATGGCAAGCAAAAGCAACAAAAACGAACAACCACTTACTTTGATTTTTGTAATGCTGAGACGGGTGTATTGCTTTGTACTGATGTTGCAGCTCGAGGACTTGACATCCCAGCGGTGGATTGGATTATCCAGTATGATCCTCCTGATGATCCTAGGGAGTACATCCACAGGGTGGGTCGAACTGCCCGAGGTGAAGGTGGGAGAGGCAAAGCTTTGTTATTTCTCATTCCTGAGGAGTTACAGTTTCTTCGATACCTGAAGGGTGCTAAAGTGCCATTGCAGGAGTATCAATATGATGAAAAGAAGACTGCTAATGTGCAATCACAACTGGAGAAAGTGATTGAAAAGAATTATTATCTTCATCAATCTGCTCGTGATGCTTATAGATCTTACCTATTAGCGTACAATTCTCATTCTATGAAGGACATATTCAATGTACATCGTCTTGATCTTCAGGCGGTGGCTACATCTTTTGGATTTAGTTGTCCTCCTAAGGTGAACCTCAACATTGATAGCAATGCAGCAAAATTTAGAAAGAACGCAGGGAAACCTGGACAAGGTGGCAAAGTAGCTGGTAAGAAGAGTGGCCATAATTTTAGTTCAAGCAACCCTTACGGAAAACGTTCTGAAGGGGATAAGAGGCAATTTGTGCGATATTAAGAACAGTAACTTCAGTTCTAAAGCTCTTGAGAGAAGTTTTAGGTATATAAATTTAACAATGGAAAAAATTTTGTTCTCGAAGAGGCTTCAGGCCTTTGTCATTATTAATTGCTAATTTTTATCCTCCACTACAGTTGTGTAATTTATTTGTGGAGTGCATTAATTATTTTTTAGCCCATGAGAGTGGTTATCATTAACAATTATCGCATACGGTTATCAAGGCTATAGTGCAGCATATCTGACACATAGGACCTATTTCGGCAGCATAAAAATCAACGGATGTCCATGAAAGTCTTTCAGATCAGTGTGCGGTGACATGTCTGACATGACACACCACAGATTTTCTGCAGGTACTTGAGCTAAATTCCATTAGTGTTGGTATATGTATTATTAATATTACATCTAGCAATCAGAAAGATCACCTTACATAGTTGGGTGTGATAATTGCACGGTTCTGTATCTTAGCGTAATTGGACTTCTATAAACATTTGAGTTGGAAGTTATCATCATGGTTGAGCTATTTGGACCAAGATGCTGTTGTAGTCTTCTGAGACACATGAATCATTGCATTAAAACAAATTTGTAGATCGATGTTATGTATGTGCATTATTCAAGAAATTAAGAGATATATCCAAATAAGCTGAACCCAACAACAACAATGTTAAAGGGCATTTCAACAAAACA

Ace file of the UniGene sp_v3.0_unigene1224

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	ATP-dependent RNA helicase (ISS) [Ostreococcus tauri] emb\|CAL55992.1\| ATP-dependent RNA helicase (ISS) [Ostreococcus tauri]	-	-	68%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	34%
Sma3	Predicted protein	-	-	-

Source	Gene names
Sma3	PHYPADRAFT_182770;

Source	GOs	Term	Type	Identity
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-

Source	InterPros	Term	Type	Identity
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3		IPR014021	-	-
Sma3	RNA helicase, ATP-dependent, DEAD-box, conserved site	IPR000629	-	-
Sma3	RNA helicase, DEAD-box type, Q motif	IPR014014	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT3G18600.1	P-loop containing nucleoside triphosphate hydrolases superfamily protein chr3:6399724-6403007 REVERSE LENGTH=568	66%
RefSeq	Arabidopsis thaliana	NP_188490.1	DEAD-box ATP-dependent RNA helicase 51 [Arabidopsis thaliana]	66%
RefSeq	Populus trichocarpa	XP_002298317.1	predicted protein [Populus trichocarpa]	69%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: B8LKZ7

Fln msg: your sequence is longer than subject: 639 - 504

Fln protein: MVEEIGGSNPLCDDGEATNGAVGSANKLKKRKKIRKRNEDGSEEPKNGGEVESNGVNGCDETNGEGFSEAKKEKKKKNKRKNAPDVVDEQRGGEQKHQESEDIDELNNGGDKKAEKKKAKKIKFSIEKLEGGTAEVSGIMSAVSFGTLKLSEPTINAIKDMGFESMTEIQARSIPELLKGSNVLGAARTGSGKTLAFLIPAVELLYHICFTPRNGTGVIIISPTRELAMQIYGVAKDLMKYHKQTHGLVIGGAARRVEAERLAKGVNLLVGTPGRLLDHLQNTKGFIYKNLKYLVIDEADRILEIGFEEEMKQIIKLLPKDRQTALFSATQTTKVEDLARVSFRTAPKYIGVDDGRSKATVEGLEQGYCVVPSAKRFLLLFTFLKKNKSKKIMVFFSSCNSVKFHSELLNYIDMPCLDIHGKQKQQKRTTTYFDFCNAETGVLLCTDVAARGLDIPAVDWIIQYDPPDDPREYIHRVGRTARGEGGRGKALLFLIPEELQFLRYLKGAKVPLQEYQYDEKKTANVQSQLEKVIEKNYYLHQSARDAYRSYLLAYNSHSMKDIFNVHRLDLQAVATSFGFSCPPKVNLNIDSNAAKFRKNAGKPGQGGKVAGKKSGHNFSSSNPYGKRSEGDKRQFVRY*

Protein Length: 640

Fln nts: ACCCGCTTCCATTCCTGAAAATGACCAGTTTACACACAGTTCCTAAAATACCCACAAAAATATGAATTTTAACATCTTGAAATGGTTTATACGCCCACAATCTCTCTCGGGAATTCTTAAATGATGTGCCTAACCTAAGATATTCTTGAAAGAAAAGTTTTTTTTTTTTTTTTTGTTCACAGCAATAGGGTAAGCAGTAGTCTTCACGACTGTGACTGGAGCTTGCAATCAACAGAAGTCTGTTATCGAAGGAGGGGGGGATCGGCAGTAAGGCACCGCTTCA_-_ATGGTGGAGGAGATAGGCGGTTCGAATCCTCTTTGCGACGATGGTGAAGCAACAAACGGCGCAGTCGGCAGTGCTAATAAATTAAAGAAAAGGAAGAAAATTCGGAAGAGAAACGAAGACGGTTCAGAGGAACCCAAGAACGGCGGCGAAGTTGAAAGCAATGGAGTCAACGGCTGTGATGAAACAAACGGTGAAGGATTTAGCGAAGCAAAAAAAGAGAAGAAAAAGAAAAACAAGAGGAAAAATGCGCCTGATGTTGTAGATGAGCAACGGGGTGGCGAACAAAAACATCAGGAGAGTGAAGATATTGACGAGTTAAACAATGGTGGCGATAAAAAAGCTGAGAAGAAGAAGGCCAAAAAGATAAAATTCTCCATCGAGAAGCTCGAAGGAGGTACTGCAGAGGTTTCGGGTATCATGAGCGCTGTTTCGTTTGGCACACTAAAGCTGTCGGAGCCGACCATTAATGCTATTAAAGATATGGGGTTTGAGAGCATGACAGAGATTCAGGCCAGATCCATTCCAGAGCTCCTGAAAGGTTCCAATGTCTTGGGAGCTGCAAGGACTGGCTCAGGGAAGACACTTGCATTTTTAATTCCAGCTGTGGAACTGTTATACCATATATGTTTTACACCCCGCAATGGTACTGGTGTGATCATTATTTCCCCAACTCGAGAGCTTGCCATGCAGATATATGGTGTGGCAAAGGATCTCATGAAATACCATAAACAGACTCATGGTTTAGTTATAGGAGGTGCTGCACGTAGAGTTGAGGCAGAGCGACTTGCTAAAGGAGTAAACCTATTGGTTGGCACTCCTGGTAGACTTCTGGACCATCTTCAGAACACCAAAGGCTTTATATATAAGAATCTAAAGTACCTTGTTATCGATGAAGCTGATCGTATTCTGGAGATAGGTTTTGAGGAGGAAATGAAGCAAATTATTAAACTTCTTCCGAAGGATCGTCAAACTGCCCTTTTTTCTGCGACACAAACAACAAAGGTAGAAGATCTTGCACGTGTCTCATTTAGAACAGCTCCCAAGTACATTGGAGTGGATGATGGGAGATCTAAGGCGACAGTAGAAGGCTTAGAGCAAGGCTATTGTGTTGTGCCAAGTGCAAAGAGATTTCTTCTTTTATTCACATTTTTGAAGAAAAACAAGTCAAAAAAGATTATGGTCTTCTTTTCTTCTTGTAACTCAGTAAAATTCCACAGCGAGCTTCTCAACTACATTGACATGCCATGCCTTGATATTCATGGCAAGCAAAAGCAACAAAAACGAACAACCACTTACTTTGATTTTTGTAATGCTGAGACGGGTGTATTGCTTTGTACTGATGTTGCAGCTCGAGGACTTGACATCCCAGCGGTGGATTGGATTATCCAGTATGATCCTCCTGATGATCCTAGGGAGTACATCCACAGGGTGGGTCGAACTGCCCGAGGTGAAGGTGGGAGAGGCAAAGCTTTGTTATTTCTCATTCCTGAGGAGTTACAGTTTCTTCGATACCTGAAGGGTGCTAAAGTGCCATTGCAGGAGTATCAATATGATGAAAAGAAGACTGCTAATGTGCAATCACAACTGGAGAAAGTGATTGAAAAGAATTATTATCTTCATCAATCTGCTCGTGATGCTTATAGATCTTACCTATTAGCGTACAATTCTCATTCTATGAAGGACATATTCAATGTACATCGTCTTGATCTTCAGGCGGTGGCTACATCTTTTGGATTTAGTTGTCCTCCTAAGGTGAACCTCAACATTGATAGCAATGCAGCAAAATTTAGAAAGAACGCAGGGAAACCTGGACAAGGTGGCAAAGTAGCTGGTAAGAAGAGTGGCCATAATTTTAGTTCAAGCAACCCTTACGGAAAACGTTCTGAAGGGGATAAGAGGCAATTTGTGCGATATTAA___GAACAGTAACTTCAGTTCTAAAGCTCTTGAGAGAAGTTTTAGGTATATAAATTTAACAATGGAAAAAATTTTGTTCTCGAAGAGGCTTCAGGCCTTTGTCATTATTAATTGCTAATTTTTATCCTCCACTACAGTTGTGTAATTTATTTGTGGAGTGCATTAATTATTTTTTAGCCCATGAGAGTGGTTATCATTAACAATTATCGCATACGGTTATCAAGGCTATAGTGCAGCATATCTGACACATAGGACCTATTTCGGCAGCATAAAAATCAACGGATGTCCATGAAAGTCTTTCAGATCAGTGTGCGGTGACATGTCTGACATGACACACCACAGATTTTCTGCAGGTACTTGAGCTAAATTCCATTAGTGTTGGTATATGTATTATTAATATTACATCTAGCAATCAGAAAGATCACCTTACATAGTTGGGTGTGATAATTGCACGGTTCTGTATCTTAGCGTAATTGGACTTCTATAAACATTTGAGTTGGAAGTTATCATCATGGTTGAGCTATTTGGACCAAGATGCTGTTGTAGTCTTCTGAGACACATGAATCATTGCATTAAAACAAATTTGTAGATCGATGTTATGTATGTGCATTATTCAAGAAATTAAGAGATATATCCAAATAAGCTGAACCCAACAACAACAATGTTAAAGGGCATTTCAACAAAACA

Fln Alignment:

Contig1224___SFGTLKLSEPTINAIKDMGFESMTEIQARSIPELLKGSNVLGAARTGSGKTLAFLIPA-VELLYHICFTPRNGTGVIIISPTRELAMQIYGVAKDLMKYHKQTHGLVIGGAARRVEAERLAKGVNLLVGTPGRLLDHLQNTKGFIYKNLKYLVIDEADRILEIGFEEEMKQIIKLLPKDRQTALFSATQTTKVEDLARVSFRTAPKYI-GVDDGRSKATVEGLEQGYCVVPSAXXXXXXXXXXXXXXXXXIMVFFSSCNSVKFHSELLNYIDMPCLDIHGKQKQQKRTTTYFDFCNAETGVLLCTDVAARGLDIPAVDWIIQYDPPDDPREYIHRVGRTARGEGGRGKALLFLIPEELQFLRYL
B8LKZ7______________NFGDAGFPDYVIEEIVKAGFTEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPYLAPGDGPIVLVLAPTRELAVQIQQEAAKFGASSKIKNTCIYGGAPKGPQVRDLSKGVEIVIATPGRLIDMLESQHTNL-RRVTYLVLDEADRMLDMGFEPQIKKIVSQIRPDRQTLYWSATWPKEVELLARQSLHNPYKVIIGSSDLKANHAIEQIVE--IVSEHEKYTRLIQLLEEIMDGSRLLIFLETKKGCDQVTRKLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDIKCVINYDFPGSMEDYVHRIGRTGRA-GAKGTAYTYFTAANARFARDL

SNPs (tot: 12)

Position	A %	C %	G %	T %	Probability
253	83		16		0.994512
254	16		66		0.988813
492	25	75			1.0
877			33	66	0.997452
878	66			33	0.997452
2269	90	10			0.90298
2409	81		18		1.0
2626		16		83	0.999991
2645	87	12			0.992554
2731	80			20	0.999996
2785	25			75	0.996473
2786	75	25			0.996473

SSRs (tot: 1)

Start position	End position	Sequence	Length
2848	2859	CAA CAA CAA CAA	12

Back

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