SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene9582

Length: 2223 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene9582
AGAAAGAGCAGAGCGTAAACAAGAATCCTCCTTATCTGAGTTTCAGAAAGGCTTGAGTAAGAGATAGAGTTCTATATATAAATAATAAGGGCATGGGCGGACTGACAGTATCTGGTGGAGCAGGAACCCAAGCTCAATTCGGCATTGCAGCTATTAACACTGGCCTTCTTTCTGATCGATTTGCTTCGGCAGGCGGGCGCTTTTCCCTGAACCTTTCTCCACATAGAATTGTTCACAGACAGAGACGGAATATAAATGCAAAGGCCGAACATGGAAGACGAAGATCCCCGATACTTACTGTATCGAATCCTCTCCCATTCCTTAACAATTCCACAGAAAGACAAGGAGAATTTGCCTCCAAGAGAAGGCTCAAAGCATCATCGCGAACTAAAGCAGTAGCCTTCAAAAAGGACGATTCATGCGCAATTCCAATTTCAGAAGTCGACTATGGCGAAGCCGCTGCTGCACTCGAAGACCTTTACAATGACAGCCCGGCCTCTGTATCGGGCTCCGACTTAGACACTTTCGACCAGCCGCAGGAAAACAAAGGTCGAAGGAGGAATAAAAAAGCCTTGCGCAGACATGAAACTACTGATGAGGCATCACCAAAATTATCTGGTCCAGATGCCGTTTACGCCTCTGCTGTGCCGTTGAAAGCTAGAAAGGCCGGGAGCGCTGCTAAGAAAACACATAAAAGTTCTTCCATTAGAAGTGCTCTTGTAGTCAGAAGCCCCAGAAAGTACAAGAAACGGTTAAGCCTTGACTCAAGGATCGCTTTGAGGAAAGCAAGGTTGGCAAGGATGCAATCCAGAGAGCAGGCTGCCAGTCTGGGAAAGAACAAATTAAATGCTAGCAACGAAGATCCAGATATCTGGAGTGAAGAAGTTGATCAGCTTATCAAAGGATACTTAGTGTCCACGGATTTGATATCTTTGGATTGGAATAGGCTACAAACCCGGGGTCTTCTTTCTCCGGCAGAACACATTTGGCTTGCCAAGCTCATGCAGCCGATGAAGTTTTATTTTCAGACAAAGGATACTTTAAAGAATGTTCTAAGAAGAGAGCCGAGAGATGATGAAATAGCAAAAGCACTGAATGTGCCTGCACGCACTTTCAAGAGACAAATGGAAGCAGCGCAGGCTGCAAGAAATAAGATGATGCAGCATAATCTAAGATTGGTACTCTTTGAGGTCTACAAACACAATCTTGAAGAGACCGGTTTAGGGTTCCATGATGCATGCCAAGAAGGGTCAAAGGGCCTGTTGATTGCAGTGGACAGATTTGAACCAAAGAAAGGTTTTAGGCTGTCAACTTATGCACTGCATTGGATTCGCTATTCCATTCTTCGAGCTATTACGCTTTCCAACCTCAGGCGCACCTCTTTCAGTGTTGCAGCGTTGAAACTCGATATACAAAGGGCAACTCTGGATTTATTGTTTCAGCTTGGGAGGGCTCCTACTGATGAGGAGATAAGGTGGAAACTGGGTTTGAAGAAAGAAAGGTACGATGAAGTTGTCCGAGCATCCAAGAGGGTTATGTCTCTTAATGAGTACGATCGCACGACCAAAGAGGAACTTATCAATACTATTGTAGACCAAGAGAATGGGAATTACACTTCTATATCACCACAAGCTATGCTCAGACTTGGCTTGGATGATGTTCTTGATTCCTTAAAGCCCAAAGAGAGTTTGGTAATCAGGCAAAGATTTGGATTGGATGGAAAAGGAGGAAAATCTCTGGGAGAAATCGCTAGAAATCTCAACATTTCTAGAGAAATGGTCCGAAAGTATGAAGTGAAAGGGCTCTTAAAACTCAAACATCCCTCGAGAGTTGAGTATCTTCGTAGTTACTTAGTCTAAGATTACATACATCTTAAAATATGCTTCATTTGTCATGGATGGCCTCTCATCTGTATAAAGGATACTTGGATTTATTTCCCAGTTTAAATGTACAATAGAAATGCCTTCCCATGGAAAATGAAATTGAAATTGAACTTTTTGAAGAGTTCCCAGAGCTGTTGTACAGTATAAGAGTTATACCATATACCCTATCGCAACTCCCAAGCCATCCAGAGGCTTCTTTAAAGTAGTCTTTTTCAACGGTTTTACCATTTCCAGAGGTAAATATACATATATTTTTTGAAAATAATATATTGTTTTCCAAAACATTCTATTTTGGATGGAATTTTGGATACAGGATGTTTTCTAACACCAATTCCTTTTC

Ace file of the UniGene sp_v3.0_unigene9582 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	RNA polymerase sigma factor [Arabidopsis thaliana] emb\|CAA77213.1\| sigma-like factor [Arabidopsis thaliana] dbj\|BAA78109.1\| RNA polymerase sigma subunit SigE [Arabidopsis thaliana] dbj\|BAB11572.1\| sigma-like factor [Arabidopsis thaliana] dbj\|BAH19595.1\| A	-	-	0.0	42%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	32%

Source	Gene names
Sma3	AT5G24120; At5g24120; GSVIVT00006496001; Os05g0586600; OsI_21178; OsJ_19718; POPTRDRAFT_1118310; POPTRDRAFT_569483; POPTRDRAFT_591382; RCOM_1580440; SIG5; sig5; sigE;

Source	GOs	Term	Type	Identity
Sma3	plastid	GO:0009536	Cellular Component	-
Sma3	sequence-specific DNA binding transcription factor activity	GO:0003700	Molecular Function	-
Sma3	DNA-directed RNA polymerase activity	GO:0003899	Molecular Function	-
Sma3	sigma factor activity	GO:0016987	Molecular Function	-
Sma3	transcription initiation, DNA-dependent	GO:0006352	Biological Process	-
Sma3	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	-
Sma3	response to blue light	GO:0009637	Biological Process	-
Sma3	response to red light	GO:0010114	Biological Process	-
Sma3	response to far red light	GO:0010218	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	RNA polymerase sigma-70 factor	IPR000943	-	-
Sma3	Carbohydrate/puine kinase, PfkB, conserved site	IPR002173	-	-
Sma3	RNA polymerase sigma-70 region 3	IPR007624	-	-
Sma3	RNA polymerase sigma-70 region 2	IPR007627	-	-
Sma3	RNA polymerase sigma-70 region 4	IPR007630	-	-
Sma3	Winged helix-turn-helix transcription repressor DNA-binding	IPR011991	-	-
Sma3	RNA polymerase sigma-70	IPR014284	-	-

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: B8LQB0

Fln msg: your sequence is longer than subject: 589 - 495

Fln protein: MGGLTVSGGAGTQAQFGIAAINTGLLSDRFASAGGRFSLNLSPHRIVHRQRRNINAKAEHGRRRSPILTVSNPLPFLNNSTERQGEFASKRRLKASSRTKAVAFKKDDSCAIPISEVDYGEAAAALEDLYNDSPASVSGSDLDTFDQPQENKGRRRNKKALRRHETTDEASPKLSGPDAVYASAVPLKARKAGSAAKKTHKSSSIRSALVVRSPRKYKKRLSLDSRIALRKARLARMQSREQAASLGKNKLNASNEDPDIWSEEVDQLIKGYLVSTDLISLDWNRLQTRGLLSPAEHIWLAKLMQPMKFYFQTKDTLKNVLRREPRDDEIAKALNVPARTFKRQMEAAQAARNKMMQHNLRLVLFEVYKHNLEETGLGFHDACQEGSKGLLIAVDRFEPKKGFRLSTYALHWIRYSILRAITLSNLRRTSFSVAALKLDIQRATLDLLFQLGRAPTDEEIRWKLGLKKERYDEVVRASKRVMSLNEYDRTTKEELINTIVDQENGNYTSISPQAMLRLGLDDVLDSLKPKESLVIRQRFGLDGKGGKSLGEIARNLNISREMVRKYEVKGLLKLKHPSRVEYLRSYLV*

Protein Length: 590

Fln nts: AGAAAGAGCAGAGCGTAAACAAGAATCCTCCTTATCTGAGTTTCAGAAAGGCTTGAGTAAGAGATAGAGTTCTATATATAAATAATAAGGGC_-_ATGGGCGGACTGACAGTATCTGGTGGAGCAGGAACCCAAGCTCAATTCGGCATTGCAGCTATTAACACTGGCCTTCTTTCTGATCGATTTGCTTCGGCAGGCGGGCGCTTTTCCCTGAACCTTTCTCCACATAGAATTGTTCACAGACAGAGACGGAATATAAATGCAAAGGCCGAACATGGAAGACGAAGATCCCCGATACTTACTGTATCGAATCCTCTCCCATTCCTTAACAATTCCACAGAAAGACAAGGAGAATTTGCCTCCAAGAGAAGGCTCAAAGCATCATCGCGAACTAAAGCAGTAGCCTTCAAAAAGGACGATTCATGCGCAATTCCAATTTCAGAAGTCGACTATGGCGAAGCCGCTGCTGCACTCGAAGACCTTTACAATGACAGCCCGGCCTCTGTATCGGGCTCCGACTTAGACACTTTCGACCAGCCGCAGGAAAACAAAGGTCGAAGGAGGAATAAAAAAGCCTTGCGCAGACATGAAACTACTGATGAGGCATCACCAAAATTATCTGGTCCAGATGCCGTTTACGCCTCTGCTGTGCCGTTGAAAGCTAGAAAGGCCGGGAGCGCTGCTAAGAAAACACATAAAAGTTCTTCCATTAGAAGTGCTCTTGTAGTCAGAAGCCCCAGAAAGTACAAGAAACGGTTAAGCCTTGACTCAAGGATCGCTTTGAGGAAAGCAAGGTTGGCAAGGATGCAATCCAGAGAGCAGGCTGCCAGTCTGGGAAAGAACAAATTAAATGCTAGCAACGAAGATCCAGATATCTGGAGTGAAGAAGTTGATCAGCTTATCAAAGGATACTTAGTGTCCACGGATTTGATATCTTTGGATTGGAATAGGCTACAAACCCGGGGTCTTCTTTCTCCGGCAGAACACATTTGGCTTGCCAAGCTCATGCAGCCGATGAAGTTTTATTTTCAGACAAAGGATACTTTAAAGAATGTTCTAAGAAGAGAGCCGAGAGATGATGAAATAGCAAAAGCACTGAATGTGCCTGCACGCACTTTCAAGAGACAAATGGAAGCAGCGCAGGCTGCAAGAAATAAGATGATGCAGCATAATCTAAGATTGGTACTCTTTGAGGTCTACAAACACAATCTTGAAGAGACCGGTTTAGGGTTCCATGATGCATGCCAAGAAGGGTCAAAGGGCCTGTTGATTGCAGTGGACAGATTTGAACCAAAGAAAGGTTTTAGGCTGTCAACTTATGCACTGCATTGGATTCGCTATTCCATTCTTCGAGCTATTACGCTTTCCAACCTCAGGCGCACCTCTTTCAGTGTTGCAGCGTTGAAACTCGATATACAAAGGGCAACTCTGGATTTATTGTTTCAGCTTGGGAGGGCTCCTACTGATGAGGAGATAAGGTGGAAACTGGGTTTGAAGAAAGAAAGGTACGATGAAGTTGTCCGAGCATCCAAGAGGGTTATGTCTCTTAATGAGTACGATCGCACGACCAAAGAGGAACTTATCAATACTATTGTAGACCAAGAGAATGGGAATTACACTTCTATATCACCACAAGCTATGCTCAGACTTGGCTTGGATGATGTTCTTGATTCCTTAAAGCCCAAAGAGAGTTTGGTAATCAGGCAAAGATTTGGATTGGATGGAAAAGGAGGAAAATCTCTGGGAGAAATCGCTAGAAATCTCAACATTTCTAGAGAAATGGTCCGAAAGTATGAAGTGAAAGGGCTCTTAAAACTCAAACATCCCTCGAGAGTTGAGTATCTTCGTAGTTACTTAGTCTAA___GATTACATACATCTTAAAATATGCTTCATTTGTCATGGATGGCCTCTCATCTGTATAAAGGATACTTGGATTTATTTCCCAGTTTAAATGTACAATAGAAATGCCTTCCCATGGAAAATGAAATTGAAATTGAACTTTTTGAAGAGTTCCCAGAGCTGTTGTACAGTATAAGAGTTATACCATATACCCTATCGCAACTCCCAAGCCATCCAGAGGCTTCTTTAAAGTAGTCTTTTTCAACGGTTTTACCATTTCCAGAGGTAAATATACATATATTTTTTGAAAATAATATATTGTTTTCCAAAACATTCTATTTTGGATGGAATTTTGGATACAGGATGTTTTCTAACACCAATTCCTTTTC

Fln Alignment:

Contig9582___SRIALRKARLARMQSREQAASLGKNKLNASNEDPDIWSEEVDQLI--KGYLVSTDLISLDWNRLQTRGLLSPAEHIWLAKLMQPMKFYFQTKDTLKNVLRREPRDDEIAKALNVPARTFKRQMEAAQAARNKMMQHNLRLVLFEVYKHNLEETGLGFHDACQEGSKGLLIAVDRFEPKKGFRLSTYALHWIRYSILRAIT-LSNLRRTSFSVAALKLDIQRATLDLLFQLGRAPTDEEIRWKLGLKKERYDEVVRASKRVMSLNEYDRTTKEELINTIVDQENGNYT-SISPQAMLRLGLDDVLDSLKPKESLVIRQRFGLDGKGGKSLGEIARNLNISREMVRKYEVKGLLKLKHPSRVEYLRSYL
B8LQB0______________SRQMERRARRAR--ASEKAASV------ASAISPTRSSRKGKKAISSKGHISDSIRLLRDWSSSR---LLTASEEVELSRGIQDLIKLDRIRAKYKEKTGKEPTLAQWAEVIGVDQKTLKMRLEVGRDSFDKIINCNLRLVI-SVAK-NYQNRGLSLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYAYWWIRQSITKALTEQSRTIRLPVHIVESMTRIRTAWRLLYQEHKRDPTKEEVAEVAGISMTRLRHVTRCSRVPTSLDRCVGKDMDEKFSEIVADTNSESTETIVSKELFKKDLDRVLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRKLRQNHRTQHLKHYL

SNPs (tot: 13)

Position	A %	C %	G %	T %	Probability
896	12	87			0.992554
899	87			12	0.992554
910	85			14	0.993533
1007	33		66		0.997452
1008	33		66		0.997452
1010		66	33		0.997452
1284	25	75			0.996473
1287	75			25	0.996473
1521	25		75		0.996473
1979	25			75	0.996473
1981	25	75			0.996473
1982			75	25	0.996473
2013	66	33			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