SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene289

Length: 2014 nt

UniGene Fasta

>sp_v3.0_unigene289
CACTATGGATGTCCAAAAAGTCTAGAATCTTATTACCAGGAGAGTGGTAGATGTGGTCGGGATGGATTGCCCTCAAAATGTTGGTTGTACTACTCACGTGGTGATTTTATGAAAGCAGATTTTTACACTTCAGAAGCACGCACTGGAGCCAGGCGGAAGGAGGTGATGGATTCTCTCCTAGCAGCACAGAAATATTGTAGCCTTACAACATGCCGCAGAAAATGTTTTTTGGAGTACTTTGGCGAGAGTGTTGCTTTTGACAATTGTGGTAATTGTGACAACTGTACAACATCAGTATCTGTTGATCAACGAGACATGGCAAAGGAGGCTTACTTGTTGCTCACTTGTATTCAATCTTGTGGAGGTCGTTGGGGCTTTAATGTTCCAATCGACGTTCTTCGTGGATCACGTACAAAGAAACTGACACAGAATCAGTTTGACAAGCTTCCTGTACATGGTTTGGGTAAAACCTATTCATCAAACTGGTGGAAGGCACTTGGTGACCAACTAATCAACCTTGGTTATTTAGAAGAAACAGTAATTGACATATACAGGACCATCAGAGTTAGTCACCAAGGTCAACAGTTCCTTCAATTGGCAAGTCACAAAAGCCAGCCCTCACTTATATTACGACTAACTCCTGAGATGATCAGTGAGGAAAACAGCAAGAGTGGATTAAAGATTGGAAAAGTAGTAGATGGAGATACAGGAACTTTTCCTACTCTTCAAGATCAAGGGTTTTCAGAGATGGAAGTGAAACTCTACCATATGCTTTTAGACTTTAGGGCTGAGCTTGCACAGAGGGAATCTACAGCTCCATATGCAGTTTGCAGTGAAGAGACACTTCAAAAGTTGGCAAAGATTCGACCTTCTACCATGGCTAGGCTAGGAAACATTGATGGTGTTAATCAGCACCTCATAACAATGCATGGTGTTCAGATTCTTGAAACAATAAAAAGCTTCTCAGAAAGTTTGGGGCTTCGTCTGGATGGAGAGTTTGCAGTACACACAAATATTTCAAGGGCATCTGCTATGAACATAGAATGTAAAGTTAGCCATGCAAAGATGGAAGCTTGGAAGATGTGGCAGGAGAATGGCCTTTCCATGTCTGAGATTGCTAACTTACCTGAGAGACCCGTTCCAATCAAAGAATCCACAGTGTTGGACTATATTCTTGAAGTTGCAAGGGTGGGATTTGAGGTGAATTGGGTGCGCTTTTGCAAAGAGTCTGGATTTACTTATAATATTGCAAAAGAAATTCAAGTTGGCATCAGCAAGGCAGGCTCCAGAGACAAGTTGAAGCCTATAAAAGAACAAGTACCAGAATTTGTGAGCTACACACATATCAAAATACTCTTGGTTCTGGAAGATTGTGGTATATCAATTGATGAGATTTTAGGCATGCAATCATCAAAAGATGAACATGAGAGTTCTTTGAAGGATTCTTTGCCAGTGTTGCAAGATGGTGCTCAAAGCATAACCGAATTTGTAAAAAGAGACGATCTTTTAAAAGCATCAAATTCCTCCGAGGAAGATGCTTTTTCAATGCCTCCATGGATTGTGAGTGATACAGGAGCAACGATACGCAAACGAAAAACTAAAGCAAAAGACAGTTTTTCTCTCTGTGAAAGCCCTACCAAAAAGCTCTGTTGTGAAAATGACCACAAGTCAGAGTCAGATATTGAGCTGTTGCAAGCCACAGAAGATGCCTTGTTAACATGGCTAAGTGAATGTGATGGGGCTTCTGTCTCTCAGATCTCCGAGCATTTTGCTGGATCCAGTAGGGATTTTGTTCTTGAATTGTTATCAAGACTCGAGGGTGAATTTTCAATATATAACAAAAATGGTATTTACAAGGTTATGTGAGAAAAATATGTAACATGTTAGACTGTTTTTTCTTGACATGGAAGGAAAGAGGTTTGTCATCATATCATTGCATACTTGTGTAAATTTAACCGGGACTTTTGTGATTCAATAGCATGTATATACATATTTGAAAGAGGTGCAATTTCTC

Ace file of the UniGene sp_v3.0_unigene289

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	ATP-dependent DNA helicase RecQ [Alkaliphilus oremlandii OhILAs] gb\|ABW18526.1\| ATP-dependent DNA helicase RecQ [Alkaliphilus oremlandii OhILAs]	-	-	1.99965e-42	28%
FL-Next	sp=ATP-dependent DNA helicase Q-like 4B; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	26%

Source	Gene names
Sma3	GSVIVT00023901001; GSVIVT00023902001; OSJNBa0008J01.26; Os07g0681600; OsI_27361; OsJ_25607; PHYPADRAFT_234221; POPTRDRAFT_1097738; RCOM_1027520; VITISV_016935;

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	DNA recombination	GO:0006310	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Helicase/RNase D C-terminal, HRDC domain	IPR002121	-	-
Sma3	DNA helicase, ATP-dependent, RecQ type	IPR004589	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3		IPR018329	-	-

Source	Species	ID	Description	e value	Identity
RefSeq	Populus trichocarpa	XP_002319444.1	predicted protein [Populus trichocarpa]	0.0	46%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: sp_plants

Fln subject: Q9FT70

Fln msg: your sequence is shorter than subject: 622 - 1150

Fln protein: HYGCPKSLESYYQESGRCGRDGLPSKCWLYYSRGDFMKADFYTSEARTGARRKEVMDSLLAAQKYCSLTTCRRKCFLEYFGESVAFDNCGNCDNCTTSVSVDQRDMAKEAYLLLTCIQSCGGRWGFNVPIDVLRGSRTKKLTQNQFDKLPVHGLGKTYSSNWWKALGDQLINLGYLEETVIDIYRTIRVSHQGQQFLQLASHKSQPSLILRLTPEMISEENSKSGLKIGKVVDGDTGTFPTLQDQGFSEMEVKLYHMLLDFRAELAQRESTAPYAVCSEETLQKLAKIRPSTMARLGNIDGVNQHLITMHGVQILETIKSFSESLGLRLDGEFAVHTNISRASAMNIECKVSHAKMEAWKMWQENGLSMSEIANLPERPVPIKESTVLDYILEVARVGFEVNWVRFCKESGFTYNIAKEIQVGISKAGSRDKLKPIKEQVPEFVSYTHIKILLVLEDCGISIDEILGMQSSKDEHESSLKDSLPVLQDGAQSITEFVKRDDLLKASNSSEEDAFSMPPWIVSDTGATIRKRKTKAKDSFSLCESPTKKLCCENDHKSESDIELLQATEDALLTWLSECDGASVSQISEHFAGSSRDFVLELLSRLEGEFSIYNKNGIYKVM*

Protein Length: 623

Fln nts: CACTATGGATGTCCAAAAAGTCTAGAATCTTATTACCAGGAGAGTGGTAGATGTGGTCGGGATGGATTGCCCTCAAAATGTTGGTTGTACTACTCACGTGGTGATTTTATGAAAGCAGATTTTTACACTTCAGAAGCACGCACTGGAGCCAGGCGGAAGGAGGTGATGGATTCTCTCCTAGCAGCACAGAAATATTGTAGCCTTACAACATGCCGCAGAAAATGTTTTTTGGAGTACTTTGGCGAGAGTGTTGCTTTTGACAATTGTGGTAATTGTGACAACTGTACAACATCAGTATCTGTTGATCAACGAGACATGGCAAAGGAGGCTTACTTGTTGCTCACTTGTATTCAATCTTGTGGAGGTCGTTGGGGCTTTAATGTTCCAATCGACGTTCTTCGTGGATCACGTACAAAGAAACTGACACAGAATCAGTTTGACAAGCTTCCTGTACATGGTTTGGGTAAAACCTATTCATCAAACTGGTGGAAGGCACTTGGTGACCAACTAATCAACCTTGGTTATTTAGAAGAAACAGTAATTGACATATACAGGACCATCAGAGTTAGTCACCAAGGTCAACAGTTCCTTCAATTGGCAAGTCACAAAAGCCAGCCCTCACTTATATTACGACTAACTCCTGAGATGATCAGTGAGGAAAACAGCAAGAGTGGATTAAAGATTGGAAAAGTAGTAGATGGAGATACAGGAACTTTTCCTACTCTTCAAGATCAAGGGTTTTCAGAGATGGAAGTGAAACTCTACCATATGCTTTTAGACTTTAGGGCTGAGCTTGCACAGAGGGAATCTACAGCTCCATATGCAGTTTGCAGTGAAGAGACACTTCAAAAGTTGGCAAAGATTCGACCTTCTACCATGGCTAGGCTAGGAAACATTGATGGTGTTAATCAGCACCTCATAACAATGCATGGTGTTCAGATTCTTGAAACAATAAAAAGCTTCTCAGAAAGTTTGGGGCTTCGTCTGGATGGAGAGTTTGCAGTACACACAAATATTTCAAGGGCATCTGCTATGAACATAGAATGTAAAGTTAGCCATGCAAAGATGGAAGCTTGGAAGATGTGGCAGGAGAATGGCCTTTCCATGTCTGAGATTGCTAACTTACCTGAGAGACCCGTTCCAATCAAAGAATCCACAGTGTTGGACTATATTCTTGAAGTTGCAAGGGTGGGATTTGAGGTGAATTGGGTGCGCTTTTGCAAAGAGTCTGGATTTACTTATAATATTGCAAAAGAAATTCAAGTTGGCATCAGCAAGGCAGGCTCCAGAGACAAGTTGAAGCCTATAAAAGAACAAGTACCAGAATTTGTGAGCTACACACATATCAAAATACTCTTGGTTCTGGAAGATTGTGGTATATCAATTGATGAGATTTTAGGCATGCAATCATCAAAAGATGAACATGAGAGTTCTTTGAAGGATTCTTTGCCAGTGTTGCAAGATGGTGCTCAAAGCATAACCGAATTTGTAAAAAGAGACGATCTTTTAAAAGCATCAAATTCCTCCGAGGAAGATGCTTTTTCAATGCCTCCATGGATTGTGAGTGATACAGGAGCAACGATACGCAAACGAAAAACTAAAGCAAAAGACAGTTTTTCTCTCTGTGAAAGCCCTACCAAAAAGCTCTGTTGTGAAAATGACCACAAGTCAGAGTCAGATATTGAGCTGTTGCAAGCCACAGAAGATGCCTTGTTAACATGGCTAAGTGAATGTGATGGGGCTTCTGTCTCTCAGATCTCCGAGCATTTTGCTGGATCCAGTAGGGATTTTGTTCTTGAATTGTTATCAAGACTCGAGGGTGAATTTTCAATATATAACAAAAATGGTATTTACAAGGTTATGTGA___GAAAAATATGTAACATGTTAGACTGTTTTTTCTTGACATGGAAGGAAAGAGGTTTGTCATCATATCATTGCATACTTGTGTAAATTTAACCGGGACTTTTGTGATTCAATAGCATGTATATACATATTTGAAAGAGGTGCAATTTCTC

Fln Alignment:

Contig289___HYGCPKSLESYYQESGRCGRDGLPSKCWLYYSRGDFMKADF---------------YTSEARTGARRKEVMDSLLAAQKYC-SLTTCRRKCFLEYFGESVAFDNCGN-CDNCTTSVSVDQRDMAKEAYLLLTCIQSCGGRWGFNVPIDVLRGSRTKKLTQNQFDKLPVHGLGKTYSSNWWKALGDQLINLGYLEETV--IDIYRTIRVSHQGQQFLQLASHKSQPSLILRLTPEMISEENSKSGLKIGKVVDGDTGTFPTL----QDQGFSEMEVKLYHMLLDFRAELAQR--ESTAPYAVCSEETLQKLAKIRPSTMARLGNIDGVNQHLITMHGVQILETIKS
Q9FT70_____________HHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYTDYIRVKHMISQGGLGQGQMKMGYNCKASSGRMLETNTENLLRMVSYCENEVDCRRFLQLVHLGEKFDSTNCKNTCDNCSSSKILIDKDVTVIARQLVALVKLTGERFSSAHIVEIYRGSLNQSVKRNRQDTLHLHGAGKHLTKSEASRILHYLVTEDILAEGVKKSELYGSVSSLLKVNRSKAASLLSGGQSITMRFPSTIKVSKQSKSTANPAKVPLKQT-TLPMAKAAPQDSNLSGI---LLTALKNLRTDIVKESPDLVMAYHIFGNATLKEISKRLPRTKEELLDINGLGKAKVSKYGDRLLETIDS

SNPs (tot: 9)

Position	A %	C %	G %	T %	Probability
1060	12		87		0.992554
1063	87			12	0.992554
1064	87			12	0.992554
1378	40		60		1.0
1399	12		87		0.992554
1400			87	12	0.992554
1401		87	12		0.992554
1402	87			12	0.992554
1583		16		83	0.994512

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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