SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene36840

Length: 2677 nt

UniGene Fasta

>sp_v3.0_unigene36840
TCGTGACCTTGGCTGTCACTCATTGAGATACTGATCCGTGGAATCCAGTTCATTCGACAAAACAGTACCCCAAAACTTTTCTCATCCATCTCTACCAGTGGAGCCTAATATAAACCTAAGAAACCTTGGTTGTTGCAAAGTGAAACGAGTAAATTGAATGGATAAGACCTAGAAGCTCGTTATTTTCGTTTAACGGATCGATGGGAAGCCATGGCTGAAGAAAGCCCAGTCTTTGATTGAAAAAAACCAGGTAAAAGGTTTTGGTAGGGTTTAAGACAAGATGAGTGGAAGGATGATGTTTCATCTTTCATCGGCGTCATCGACCTACTGTGCATCAGCTCCTATGTTGTTTAGGCCTCCCTGTTTTGCAGGCCGCAGGATTCAAGCAGGGTTTAAGGCGTTGTGCTCCTCTGCCGTAGCAGTGGATAAATCCCCAGAGCAATCTCGTGTGATTTCGTTATTGGAAAAGCTACGGTCCAGGCAACTTAAGAACGCCCCAAATGTCGCAAAGCTGCCGTCCAAGGGAACTGCTAATTCTCAAAAGGACACGAAGAGTCCCACTGTTTCTTCCTTTGCCGAGATGGAACTTGCACCGGAGATAACAAGCACAATTAAGGAATTGAACATATCTGTTCCCACTGAGGTGCAGTGCCTCGGAATACCAGCTATACTCGGAGGACAGAGCATTGTTTTGGCCTCGCACACTGGCTCCGGAAAAACTCTGGCCTACATGCTTCCTTTGGTTCAGCTTTTAAGGAAAGATGAAAGTAAAATGGGCATGCAAACAAAACCTAAGAGGCCTCGAGCTGTGGTTTTATGCCCTACCCGAGAGCTATCTGAGCAGGTTTTCCGTGTAGCTAAGTCTATATCCCATCATGCACGGTTTAGATCAACAATGATCAGTGGTGGGGGCCCCATGAAACCTCAGGAAGATGCTCTAAACAGTCCACTTGAGATGGTGGTTGGCACACCAGGAAGGTTGCTTCAACATGTTACTCAGGGACATATGTTCTATGGTGATATCAAGTATGTGGTCTTAGATGAAGCAGACACCATGTTTGATCGTGGCTTTGGACCTGACCTTCGTAAGTTTCTATATCCACTGCGAAACCGTGCAGCAAAGTCTGGTGACCAAGGTTTTCAGTCTGTTTTAGTGACTGCGACCATTACAAAGGCTGTCCAGAAGCTACTTGATGAAGAATTTCAAGGAATAGTCCATATACGCACATCAACATTACACAAGAAGATTGCATCGGCACGTCATGATTTTGTAAAGCTTTCAGGAACTGAGAATAAGCTTGAAGCACTCTTACAGGTTTTGGAACCAAGCCTTGCAAAGGGCGACAGAGTCATGGTATTTTGTAATACCTTGGACTCAAGTCGTGCAGTGGATCATTTCCTGAATGACAATCAATTGCTCACAGTGAATTATCATGGGGAAGTACCAGCAGAAGAGCGAGTTGAGAATCTCAAAAAGTTTAAGAGTGATGATGGTGACTGTCCCACGTTAGTGTGCACAGACTTGGCAGCTCGAGGGCTTGATTTAGCTGTTGATCATGTTATTATGTTTGATTTCCCGCTTACTCCAATAGATTACCTTCATCGGACTGGAAGAACTGCCCGGATGGGAGCTAAAGGTAAGGTGACAAGCCTGATTACAAAGAAGGATATCACTCTAGCAAGTCAAATTGAAGAGGCCATAAGAAAAAATGAGAGCTTGGAAGAACTTACAACTAATAAAGGAAGGTATGAAGCAGTGAAGCAAAATCAGATCCAGAAAAAAGGGAAGGAAACTACAAAGCCTAAAGAGAGATCATCTGCAAAAGGAATTAAAAGTCAGAGGACTGGACGCCCTTTGATATCAAAGCTTGGTTCTAAGGGACTGTCAAATTCTGTACCAAAGAAGTATAAAAGTATTTCAACTACAAAGAAGGCTAAAGTGATAAAAGTTCCCTTGACAGGTTCCAAGGAAAAGAAGACACTTGTCCCCAAAAAGTTAGGAGGAAGGCCTAAAGTCCAGAAGAGTGGACAACCTTCTGTAGTCAATTCCATAAGGAAGGAAACTAATGGAGAGAAAAAGGTAAAAGGTAAGGCAAAGGTATGGAAGACTGAGCAAGCATTGACATCTAGACTTTCTGTAGTTGGTTTTAAAGGGAGACAAACATCTGGGGAGAAAAATGGAAAAGGTAAAGCGAAGATAAAGTCCTAGCTTATGTAATATGCCATCAATAGGATGACTTCAAGCAACATGCTGCAACATTAGGCTGAGCTGATCTTTGGCTCAGAGAAGTGTGGAAATACTGAAAGAAGACTTATATACAGATGTCTGCACTTCTCAACCTTAAAAGGCCCTGTTCAAGCAAGAAAACCATGAGCAAGTGTTGGAATATGACATGTTGACCAAAAGGGATGGTCTTTGGGCCTAGACCTTAATATTTAAATGGAATATTCTAGTTTTGTAAAATATTCATTTATCATTCTCTGAATACATGCACTATTGGAAAACTTTGAGGGCTCACTGTATCTGAAAGGGAAACTGATTTTCATGGGTGTCAAATGCATTTCTCATTCTTATCCAGTTGTATTCCTGTTTTGCATTTTTTGCTACTCTTCAAGCATGTACTACAATGACTACTAGGATATCATGAAGTTCTAATTTTGTTGGTCAACTCTATTC

Ace file of the UniGene sp_v3.0_unigene36840

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	DEAD-box ATP-dependent RNA helicase 39 n=3 Tax=Oryza sativa RepID=RH39_ORYSJ	-	-	0.0	58%
FL-Next	sp=DEAD-box ATP-dependent RNA helicase 39; Oryza sativa subsp. japonica (Rice).	-	-	0.0	59%
Sma3	DEAD-box ATP-dependent RNA helicase 39	-	-	5.097e-09	-

Source	Gene names
Sma3	At4g09730; F17A8.80; GSVIVT00000262001; GSVIVT00005397001; LOC_Os01g08930; MICPUCDRAFT_56357; MICPUN_66775; OSTLU_31789; Os01g0184500; OsI_00680; OsJ_00660; Ot05g03310; P0510F03.6; PHYPADRAFT_159372; POPTRDRAFT_761098; RCOM_0296470; RCOM_0296580; RH39; VI

Source	GOs	Term	Type	Identity
Sma3	ribosome	GO:0005840	Cellular Component	-
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	structural constituent of ribosome	GO:0003735	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	translation	GO:0006412	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	RNA helicase, ATP-dependent, DEAD-box, conserved site	IPR000629	-	-
Sma3	Ribosomal protein L6E	IPR000915	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Polyadenylate-binding protein/Hyperplastic disc protein	IPR002004	-	-
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	-	-
Sma3	Aldo/keto reductase, conserved site	IPR018170	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT4G09730.1	RH39 RH39 chr4:6136333-6139510 FORWARD LENGTH=621	53%
RefSeq	Arabidopsis thaliana	NP_849348.1	DEAD-box ATP-dependent RNA helicase 39 [Arabidopsis thaliana]	53%
RefSeq	Populus trichocarpa	XP_002307523.1	predicted protein [Populus trichocarpa]	62%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: sp_plants

Fln subject: Q5VRY0

Fln msg:

Fln protein: MSGRMMFHLSSASSTYCASAPMLFRPPCFAGRRIQAGFKALCSSAVAVDKSPEQSRVISLLEKLRSRQLKNAPNVAKLPSKGTANSQKDTKSPTVSSFAEMELAPEITSTIKELNISVPTEVQCLGIPAILGGQSIVLASHTGSGKTLAYMLPLVQLLRKDESKMGMQTKPKRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMISGGGPMKPQEDALNSPLEMVVGTPGRLLQHVTQGHMFYGDIKYVVLDEADTMFDRGFGPDLRKFLYPLRNRAAKSGDQGFQSVLVTATITKAVQKLLDEEFQGIVHIRTSTLHKKIASARHDFVKLSGTENKLEALLQVLEPSLAKGDRVMVFCNTLDSSRAVDHFLNDNQLLTVNYHGEVPAEERVENLKKFKSDDGDCPTLVCTDLAARGLDLAVDHVIMFDFPLTPIDYLHRTGRTARMGAKGKVTSLITKKDITLASQIEEAIRKNESLEELTTNKGRYEAVKQNQIQKKGKETTKPKERSSAKGIKSQRTGRPLISKLGSKGLSNSVPKKYKSISTTKKAKVIKVPLTGSKEKKTLVPKKLGGRPKVQKSGQPSVVNSIRKETNGEKKVKGKAKVWKTEQALTSRLSVVGFKGRQTSGEKNGKGKAKIKS*

Protein Length: 644

Fln nts: TCGTGACCTTGGCTGTCACTCATTGAGATACTGATCCGTGGAATCCAGTTCATTCGACAAAACAGTACCCCAAAACTTTTCTCATCCATCTCTACCAGTGGAGCCTAATATAAACCTAAGAAACCTTGGTTGTTGCAAAGTGAAACGAGTAAATTGAATGGATAAGACCTAGAAGCTCGTTATTTTCGTTTAACGGATCGATGGGAAGCCATGGCTGAAGAAAGCCCAGTCTTTGATTGAAAAAAACCAGGTAAAAGGTTTTGGTAGGGTTTAAGACAAG_-_ATGAGTGGAAGGATGATGTTTCATCTTTCATCGGCGTCATCGACCTACTGTGCATCAGCTCCTATGTTGTTTAGGCCTCCCTGTTTTGCAGGCCGCAGGATTCAAGCAGGGTTTAAGGCGTTGTGCTCCTCTGCCGTAGCAGTGGATAAATCCCCAGAGCAATCTCGTGTGATTTCGTTATTGGAAAAGCTACGGTCCAGGCAACTTAAGAACGCCCCAAATGTCGCAAAGCTGCCGTCCAAGGGAACTGCTAATTCTCAAAAGGACACGAAGAGTCCCACTGTTTCTTCCTTTGCCGAGATGGAACTTGCACCGGAGATAACAAGCACAATTAAGGAATTGAACATATCTGTTCCCACTGAGGTGCAGTGCCTCGGAATACCAGCTATACTCGGAGGACAGAGCATTGTTTTGGCCTCGCACACTGGCTCCGGAAAAACTCTGGCCTACATGCTTCCTTTGGTTCAGCTTTTAAGGAAAGATGAAAGTAAAATGGGCATGCAAACAAAACCTAAGAGGCCTCGAGCTGTGGTTTTATGCCCTACCCGAGAGCTATCTGAGCAGGTTTTCCGTGTAGCTAAGTCTATATCCCATCATGCACGGTTTAGATCAACAATGATCAGTGGTGGGGGCCCCATGAAACCTCAGGAAGATGCTCTAAACAGTCCACTTGAGATGGTGGTTGGCACACCAGGAAGGTTGCTTCAACATGTTACTCAGGGACATATGTTCTATGGTGATATCAAGTATGTGGTCTTAGATGAAGCAGACACCATGTTTGATCGTGGCTTTGGACCTGACCTTCGTAAGTTTCTATATCCACTGCGAAACCGTGCAGCAAAGTCTGGTGACCAAGGTTTTCAGTCTGTTTTAGTGACTGCGACCATTACAAAGGCTGTCCAGAAGCTACTTGATGAAGAATTTCAAGGAATAGTCCATATACGCACATCAACATTACACAAGAAGATTGCATCGGCACGTCATGATTTTGTAAAGCTTTCAGGAACTGAGAATAAGCTTGAAGCACTCTTACAGGTTTTGGAACCAAGCCTTGCAAAGGGCGACAGAGTCATGGTATTTTGTAATACCTTGGACTCAAGTCGTGCAGTGGATCATTTCCTGAATGACAATCAATTGCTCACAGTGAATTATCATGGGGAAGTACCAGCAGAAGAGCGAGTTGAGAATCTCAAAAAGTTTAAGAGTGATGATGGTGACTGTCCCACGTTAGTGTGCACAGACTTGGCAGCTCGAGGGCTTGATTTAGCTGTTGATCATGTTATTATGTTTGATTTCCCGCTTACTCCAATAGATTACCTTCATCGGACTGGAAGAACTGCCCGGATGGGAGCTAAAGGTAAGGTGACAAGCCTGATTACAAAGAAGGATATCACTCTAGCAAGTCAAATTGAAGAGGCCATAAGAAAAAATGAGAGCTTGGAAGAACTTACAACTAATAAAGGAAGGTATGAAGCAGTGAAGCAAAATCAGATCCAGAAAAAAGGGAAGGAAACTACAAAGCCTAAAGAGAGATCATCTGCAAAAGGAATTAAAAGTCAGAGGACTGGACGCCCTTTGATATCAAAGCTTGGTTCTAAGGGACTGTCAAATTCTGTACCAAAGAAGTATAAAAGTATTTCAACTACAAAGAAGGCTAAAGTGATAAAAGTTCCCTTGACAGGTTCCAAGGAAAAGAAGACACTTGTCCCCAAAAAGTTAGGAGGAAGGCCTAAAGTCCAGAAGAGTGGACAACCTTCTGTAGTCAATTCCATAAGGAAGGAAACTAATGGAGAGAAAAAGGTAAAAGGTAAGGCAAAGGTATGGAAGACTGAGCAAGCATTGACATCTAGACTTTCTGTAGTTGGTTTTAAAGGGAGACAAACATCTGGGGAGAAAAATGGAAAAGGTAAAGCGAAGATAAAGTCCTAG___CTTATGTAATATGCCATCAATAGGATGACTTCAAGCAACATGCTGCAACATTAGGCTGAGCTGATCTTTGGCTCAGAGAAGTGTGGAAATACTGAAAGAAGACTTATATACAGATGTCTGCACTTCTCAACCTTAAAAGGCCCTGTTCAAGCAAGAAAACCATGAGCAAGTGTTGGAATATGACATGTTGACCAAAAGGGATGGTCTTTGGGCCTAGACCTTAATATTTAAATGGAATATTCTAGTTTTGTAAAATATTCATTTATCATTCTCTGAATACATGCACTATTGGAAAACTTTGAGGGCTCACTGTATCTGAAAGGGAAACTGATTTTCATGGGTGTCAAATGCATTTCTCATTCTTATCCAGTTGTATTCCTGTTTTGCATTTTTTGCTACTCTTCAAGCATGTACTACAATGACTACTAGGATATCATGAAGTTCTAATTTTGTTGGTCAACTCTATTC

Fln Alignment:

Contig36840___SSAVAVDKSPEQ------SRVISLLEKLRSRQLKNAPNVAKLPSK----------GTANSQKDTKSPTVSSFAEMELAPEITSTIKELNISVPTEVQCLGIPAILGGQSIVLASHTGSGKTLAYMLPLVQLLRKDESKMGMQTKPKRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMISGGGPMKPQEDALNSPLEMVVGTPGRLLQHVTQGHMFYGDIKYVVLDEADTMFDRGFGPDLRKFLYPLRNRAAKSGDQGFQSVLVTATITKAVQKLLDEEFQGIVHIRTSTLHKKIASARHDFVKLSGTENKLEALLQVLEPSLAKGDRVMVFCNTLDSSRAVDHFLNDNQLLTVNYHGEVPAEERVENLKKFKSDDGDCPTLVCTDLAARGLDLAVDHVIMFDFPLTPIDYLHRTGRTARMGAKGKVTSLITKKDITLASQIEEAIRKNESLEELTTNKGRYEAVKQNQIQKKGKETT-KPKERSSAKGIKSQRTGRPLISKLGSKGLSNSVPKKYKSISTTK-KAKVIKVPLTGSKEKKTLVPKKLGGRPKVQKSGQPSVVNSIRKETNGEXXXXXXXXXXXTEQALTSRLSVVGFKGRQT
Q5VRY0_______________ASAVTAPTEPETTAREAPSRHELLLERLRQRHLKGVPAATPRPAQREKGRGGGGGGAQELQQKRRVEVVDSFEELGLGEEVMAALGEMGISKPTEIQCVGVPAVLAGTSVVLGSHTGSGKTLAYLLPLVQLLRRDEAMLGMSMKPRRPRAVVLCPTRELTEQVFRVAKSISHHARFRSTMVSGGSRIRPQEDSLNMPVDMVVGTPGRILDHIKDGNMVYGDIKYLVLDEADTMFDQGFGPDIRKFLAPLKNRAAKPGDQGFQTVLVTATMTKAVQKLIDEEFEGIVHLRTTTFQKRVATARHDFIKLSGSENKLEALLQVLEPSLAKGNKVMVFCNTLNSSRAVDHFLTENQISTVNYHGEVPAEERVENLNKFRNEEGDCPTLVCTDLAARGLDLDVDHVIMFDFPSNSIDYLHRTGRTARMGAKGKVTSLVAKKDVTLATRIEEAMKKNESLEALTTNNVRRAAVNPQYTSTKGRPSALKVVNQKGRRGVALQTKSSRIVKDTTSSRRRSPIRSQPRSKSTSSGKAK----PVRSAKPSKSSSPS-----PKVAKS---------RPRPEGRKGDAL--------NKLGSKLSVVGFRGRSS

SNPs (tot: 12)

Position	A %	C %	G %	T %	Probability
133	25			75	0.996473
136		75	25		0.996473
137	75		25		0.996473
2172	12		87		0.992554
2173		12	87		0.992554
2175			87	12	0.992554
2176	87			12	0.992554
2227	80		20		0.999996
2456	33		66		1.0
2469		11		88	0.923564
2517		62		37	1.0
2536	50		33		1.0

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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