SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene34932

Length: 1964 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene34932
ATGGGACGAAGGAAAATATCTTCGAACTCTTCCTCCGCCTCAACCAAAACCCTACATGTCCCGACGAAGGAAAATATCTTCGAATTCTTCCTCCCCCTCAAGTCTCCACGTTGTCCGCAGATCGACAGCTTGGGGAAGCCCTGCACTGTTGGGTTGGAGAGTGAGTTTGAAGTTAGCTACTAATCCACAATGGCGGGACGTCTTGGAGGAGCGCTTTTGCTATACCCTACAGTTTCAACCATCAACAACATTTCGTGTAAAAATCTCAATCCTTGCTTTGCCTCTCAAGCATTCACGCTTTCTCCGAGTGCTTTTTCTTTAAATTTCCATATGTTTAGTATTGTAAGGAACGCCAAATTTACCCTGAGGCATTTCAATCCAAGTTCCAGAAAGAATAATTCAGTTGTTTTGGGTACCAGAAATCACTCAAGCCGCTCGTTTCGTTCTGAACGGGGTCGGGACGACGAACCTATCCCAGCTTGGCGAAGAACCCCTAAAACAACGACTTTTAACGCAAAAAGTACAAATAGACCAGAATCCAAAAGTCTGGTTGAAGAGGAACTGGATATGGATAACTTGTTTGGAAAACGGGGTGCATCTATGTCTGGTCGGTCGAATCCTGGTAGAAATGATTATAATGATGGATCGTCGAGGAATTATAGAGGCAATGATGTCTCTGCAAGGGGCAGACAAGGAGGGAATGGCTCTTTTAATGGGGTCTCTCCAAGGGGCAGGCGAGGAGGGAATAGCTCGTTTAATGGGGTCTCTGCAAGGGGCAGACGAGGTGGGGGTGTCTTGTCGGACAGAAGGGGCTCTAATCCATCTGGTAGGCAAGCACTGGAAAGTAGTGATGACGAGGATGAAGATGAATCTGAAGATGTCTGGGAGAACGAAACTTCTTCGTCTCCTCGAAGATACCACAAAACAAATGATTTTGACAAAATAAATAGTAATAGAAGGCAGACCCAATCCAAACGTCCGGCTGAAGAGGAACTGGATATGGATAACTGGTTTGATAAGCGGGGTATATCTATGTCTGGTCGGCCGAAGCGCGGCAGAAATAATGATAATGATGGATTATCAAGGACTTCTAGAGGTAATGGGGTCTCTGCAAGAGGCGGACGAGGTAGTGGGGTCTCTGCAAGAGGCTCTAAATCCTCTGGTAGGCAAGTACTGAAGATCAGTGATGACGAAGACGAAGACGAGTCTGAAGATGAAGATAAAGATGATGAATTTGATGCTGTTACGGATGTTACATCGAGTAGCGAAGATGATGATGAATTTGATTCAGCGAAGCCTGTGGGGCACAAGCAGCCAATGTTGAGTGCTGTTCAAAAAGCGGATCCAAAGACAAGCAGTGTGAAGGTTACTGGGGATGCTAATTATTTGAGCCAGTCAAGATTTGACCAGCACAATATCTCACCATTGACACTCAAGGCAACCAATGCAGTGGGGTATGAGCGCATGACCATTGTGCAAGAAGCAACTCTTCCATCTATTCTCAAAGGCAAGGATGTGTTGGCCAAGGCTAAAACTGGCACCGGCAAGACAGTAGCATTTCTGCTTCCTGCTATTGAGGTGATAGTGAAGTCACCACCGGTCCTCCGAGATGAGAAAAGTCCGCCTATTCTTGTTCTTGTCATTTGTCCCACTCGGGAACTTGCAAGTCAAGCTGCTGCCGAGGCCAATGTTTTGTTGAAATTCCAATGCTTGTACTTGATGAAGCTGACCATTTGCTAGATATGGGGTTCCGTAAGGATCTTGATAAGATAATTGCTGCTGTGCCTAAAGAGAGGCAGACACTCCTATTTTCAGCTACAGTTCCAGAAGAGGTTCACAAAGTATCCCAGATTGCTTTAAAACGGGATCATGAGTTTATTAATACAGTTGAAGAGGGCAGTGAGGAAACACACTCAAAGGTTTGTCAGTCATCAATTATTGCTTCACATGAGAGGCATTTCAAC

Ace file of the UniGene sp_v3.0_unigene34932 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	RNA helicase [Arabidopsis thaliana]	-	-	6.0e-40	64%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	43%
Sma3	DEAD-box ATP-dependent RNA helicase 31	-	-	1.003e-08	-

Source	ECs	Term	Type	e value	Identity
Sma3	Hydrolases, Acting on acid anhydrides, In phosphorous-containing anhydrides.	EC:3.6.1.-	-	1.425e-11	-

Source	KEGGs	Term	e value	Identity
Sma3	Purine metabolism	00230	1.425e-11	%
Sma3	Lipopolysaccharide biosynthesis	00540	1.425e-11	%
Sma3	Folate biosynthesis	00790	1.425e-11	%
Sma3	Metabolic pathways	01100	1.425e-11	%

Source	Gene names
Sma3	At5g08620; At5g63630; B1040D09.6; B1040D09.7; GSVIVT00001145001; GSVIVT00027015001; LOC_Os01g43120; LOC_Os01g43130; LOC_Os06g33520; MAH20.18; MBK5.11; MICPUCDRAFT_2001; MICPUN_66832; MICPUN_89111; OSJNBa0043B22.23; Os01g0618400; Os01g0618500; Os06g0526600

Source	GOs	Term	Type	Identity
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	response to cold	GO:0009409	Biological Process	-
Sma3	response to water deprivation	GO:0009414	Biological Process	-
Sma3	response to salt stress	GO:0009651	Biological Process	-

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

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT5G08610.1	P-loop containing nucleoside triphosphate hydrolases superfamily protein chr5:2790341-2794059 FORWARD LENGTH=850	4.06377e-44	64%
RefSeq	Arabidopsis thaliana	NP_196478.2	DEAD-box ATP-dependent RNA helicase 26 [Arabidopsis thaliana]	6.02558e-44	64%
RefSeq	Populus trichocarpa	XP_002302625.1	predicted protein [Populus trichocarpa]	1.99965e-42	75%

Full-Lengther Next Prediction

Fln status: N-terminus

Fln database: coniferopsida.fasta

Fln subject: B8LKZ7

Fln msg: Unexpected STOP codon at 3' end. Distance to subject end: 214 aas,

Fln protein: MAGRLGGALLLYPTVSTINNISCKNLNPCFASQAFTLSPSAFSLNFHMFSIVRNAKFTLRHFNPSSRKNNSVVLGTRNHSSRSFRSERGRDDEPIPAWRRTPKTTTFNAKSTNRPESKSLVEEELDMDNLFGKRGASMSGRSNPGRNDYNDGSSRNYRGNDVSARGRQGGNGSFNGVSPRGRRGGNSSFNGVSARGRRGGGVLSDRRGSNPSGRQALESSDDEDEDESEDVWENETSSSPRRYHKTNDFDKINSNRRQTQSKRPAEEELDMDNWFDKRGISMSGRPKRGRNNDNDGLSRTSRGNGVSARGGRGSGVSARGSKSSGRQVLKISDDEDEDESEDEDKDDEFDAVTDVTSSSEDDDEFDSAKPVGHKQPMLSAVQKADPKTSSVKVTGDANYLSQSRFDQHNISPLTLKATNAVGYERMTIVQEATLPSILKGKDVLAKAKTGTGKTVAFLLPAIEVIVKSPPVLRDEKSPPILVLVICPTRELASQAAAEANVLLKFQCLYLMKLTIC*

Protein Length: 518

Fln nts: ATGGGACGAAGGAAAATATCTTCGAACTCTTCCTCCGCCTCAACCAAAACCCTACATGTCCCGACGAAGGAAAATATCTTCGAATTCTTCCTCCCCCTCAAGTCTCCACGTTGTCCGCAGATCGACAGCTTGGGGAAGCCCTGCACTGTTGGGTTGGAGAGTGAGTTTGAAGTTAGCTACTAATCCACA_-_ATGGCGGGACGTCTTGGAGGAGCGCTTTTGCTATACCCTACAGTTTCAACCATCAACAACATTTCGTGTAAAAATCTCAATCCTTGCTTTGCCTCTCAAGCATTCACGCTTTCTCCGAGTGCTTTTTCTTTAAATTTCCATATGTTTAGTATTGTAAGGAACGCCAAATTTACCCTGAGGCATTTCAATCCAAGTTCCAGAAAGAATAATTCAGTTGTTTTGGGTACCAGAAATCACTCAAGCCGCTCGTTTCGTTCTGAACGGGGTCGGGACGACGAACCTATCCCAGCTTGGCGAAGAACCCCTAAAACAACGACTTTTAACGCAAAAAGTACAAATAGACCAGAATCCAAAAGTCTGGTTGAAGAGGAACTGGATATGGATAACTTGTTTGGAAAACGGGGTGCATCTATGTCTGGTCGGTCGAATCCTGGTAGAAATGATTATAATGATGGATCGTCGAGGAATTATAGAGGCAATGATGTCTCTGCAAGGGGCAGACAAGGAGGGAATGGCTCTTTTAATGGGGTCTCTCCAAGGGGCAGGCGAGGAGGGAATAGCTCGTTTAATGGGGTCTCTGCAAGGGGCAGACGAGGTGGGGGTGTCTTGTCGGACAGAAGGGGCTCTAATCCATCTGGTAGGCAAGCACTGGAAAGTAGTGATGACGAGGATGAAGATGAATCTGAAGATGTCTGGGAGAACGAAACTTCTTCGTCTCCTCGAAGATACCACAAAACAAATGATTTTGACAAAATAAATAGTAATAGAAGGCAGACCCAATCCAAACGTCCGGCTGAAGAGGAACTGGATATGGATAACTGGTTTGATAAGCGGGGTATATCTATGTCTGGTCGGCCGAAGCGCGGCAGAAATAATGATAATGATGGATTATCAAGGACTTCTAGAGGTAATGGGGTCTCTGCAAGAGGCGGACGAGGTAGTGGGGTCTCTGCAAGAGGCTCTAAATCCTCTGGTAGGCAAGTACTGAAGATCAGTGATGACGAAGACGAAGACGAGTCTGAAGATGAAGATAAAGATGATGAATTTGATGCTGTTACGGATGTTACATCGAGTAGCGAAGATGATGATGAATTTGATTCAGCGAAGCCTGTGGGGCACAAGCAGCCAATGTTGAGTGCTGTTCAAAAAGCGGATCCAAAGACAAGCAGTGTGAAGGTTACTGGGGATGCTAATTATTTGAGCCAGTCAAGATTTGACCAGCACAATATCTCACCATTGACACTCAAGGCAACCAATGCAGTGGGGTATGAGCGCATGACCATTGTGCAAGAAGCAACTCTTCCATCTATTCTCAAAGGCAAGGATGTGTTGGCCAAGGCTAAAACTGGCACCGGCAAGACAGTAGCATTTCTGCTTCCTGCTATTGAGGTGATAGTGAAGTCACCACCGGTCCTCCGAGATGAGAAAAGTCCGCCTATTCTTGTTCTTGTCATTTGTCCCACTCGGGAACTTGCAAGTCAAGCTGCTGCCGAGGCCAATGTTTTGTTGAAATTCCAATGCTTGTACTTGATGAAGCTGACCATTTGCTAGATATGGGGTTCCGTAAGGATCTTGATAAGATAATTGCTGCTGTGCCTAAAGAGAGGCAGACACTCCTATTTTCAGCTACAGTTCCAGAAGAGGTTCACAAAGTATCCCAGATTGCTTTAAAACGGGATCATGAGTTTATTAATACAGTTGAAGAGGGCAGTGAGGAAACACACTCAAAGGTTTGTCAGTCATCAATTATTGCTTCACATGAGAGGCATTTCAAC

Fln Alignment:

Contig34932___GYERMTIVQEATLPSILKGKDVLAKAKTGTGKTVAFLLPAIEVIVKSPPVLRDEKSPPILVLVICPTRELASQAAAE-----ANVLLKFQCLY
B8LKZ7_______________GFTEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAI-VHVNAQPYLAPGDGP--IVLVLAPTRELAVQIQQEAAKFGASSKIKNTCIY

SNPs (tot: 18)

Position	A %	C %	G %	T %	Probability
1691	66		33		0.997452
1733	33			66	0.997452
1736	83		16		0.994512
1748		16		83	0.994512
1793	14		85		0.993533
1794		85		14	0.993533
1795			14	85	0.993533
1796	85			14	0.993533
1800		14		85	0.993533
1804	85			14	0.993533
1953	25			25	0.995533
1956			33	66	0.997452
1958			33	66	0.997452
1959	33			66	0.997452
1961	25	75			0.996473
1962			33	66	0.997452
1963		33		66	0.997452
1966	33			66	0.997452

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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