SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene34975

Length: 758 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene34975

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	RNA polymerase sigma factor n=2 Tax=Cyanothece RepID=B7K1V2_CYAP8	-	-	0.0	49%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	79%
Sma3	Sigma factor 2	-	-	2.424e-08	-

Source	Gene names
Sma3	At1g08540; At1g08540/F22O13_2; At5g13730; GSVIVT00022983001; LOC_Os03g16430; LOC_Os11g26160; MICPUCDRAFT_47508; MICPUN_100150; MSH12.20; OJ1261C08.7; OSTLU_41331; Os03g0271100; OsI_10924; OsI_14770; OsJ_10293; OsSig2A; OsSig2B; Ot06g01190; PHYPADRAFT_1134

Source	GOs	Term	Type	Identity
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	sequence-specific DNA binding transcription factor activity	GO:0003700	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	-

Source	InterPros	Term	Type	Identity
Sma3	RNA polymerase sigma-70 factor	IPR000943	-	-
Sma3	Aminotransferase class-III	IPR005814	-	-
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	RNA polymerase sigma-70 region 1.2	IPR009042	-	-
Sma3	Winged helix-turn-helix transcription repressor DNA-binding	IPR011991	-	-
Sma3	RNA polymerase sigma-70	IPR014284	-	-
Sma3	RNA polymerase sigma factor, SigB/SigC/SigD, plastid	IPR016262	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G08540.1	SIGB, SIG1, SIG2, SIGA, ATSIG1, ABC1, ATSIG2 RNApolymerase sigma subunit 2 chr1:2703461-2706696 FORWARD LENGTH=572	46%
RefSeq	Arabidopsis thaliana	NP_172330.1	RNApolymerase sigma subunit 2 [Arabidopsis thaliana]	46%
RefSeq	Populus trichocarpa	XP_002319746.1	predicted protein [Populus trichocarpa]	48%

Full-Lengther Next Prediction

Fln status: Putative C-terminus

Fln database: coniferopsida.fasta

Fln subject: B8LQB0

Fln msg: Unexpected stop codon in the beginning of your sequence, STOP codon was not found. Distance to subject end: 15 aas, your sequence is shorter than subject: 252 - 495

Fln protein: LQVRK*SFSRGIQDLIKLDKIRAKYKEKTGKEPTLAQWAEVISIDQTTLKRRLQVGWDSFDKIINCNLRLVISVAKIYQNRGLSLQDLIQAGSMGLMRSAEKFDHSRGFKFSTYAYWWIRQSITKALTEQSRTIRLPVHIVESMNRIRASRRLLYQEHRRDPTKEEVAEVAGMTLSRLRHVTRCSRAPISLDRPVRKDLDKVLDTLTPREKQVVRLRYGLDDGRMKSLHEVGDHFSLSRERVRQIEVKAMIT

Protein Length: 253

Fln nts: CTGCAAGTGAGGAAGTAGAGCTTTTCACGAGGAATACAGGACCTTATCAAGTTAGATAAAATCAGGGCAAAGTATAAAGAGAAAACTGGAAAAGAGCCAACTCTAGCTCAATGGGCAGAAGTTATTAGCATTGACCAGACAACTTTGAAAAGGCGGTTACAGGTGGGATGGGATTCATTTGATAAAATCATCAATTGCAACCTTCGGCTGGTTATATCTGTTGCAAAAATTTATCAAAACCGAGGATTGAGCCTACAAGACCTTATTCAGGCAGGAAGCATGGGTCTCATGCGGAGTGCTGAGAAGTTTGATCATTCACGTGGATTTAAGTTTTCTACATATGCTTACTGGTGGATTAGACAGTCTATTACAAAGGCACTTACAGAGCAGTCAAGGACAATCCGGTTACCTGTGCACATTGTTGAGTCAATGAATCGAATAAGAGCGTCACGGAGGCTGTTGTACCAGGAGCATAGAAGAGATCCTACAAAAGAAGAAGTTGCGGAGGTAGCAGGAATGACCCTGTCAAGACTGAGACATGTGACTAGGTGTTCAAGAGCTCCGATATCCCTTGATAGACCCGTTCGGAAAGACCTTGATAAAGTTCTAGACACTCTTACACCAAGGGAGAAACAAGTGGTGAGATTACGCTATGGGCTGGATGATGGCAGAATGAAATCTCTTCATGAGGTTGGAGACCACTTCTCTCTCAGCAGAGAGAGGGTCAGACAGATAGAAGTAAAAGCCATGATTACATT

Fln Alignment:

Contig34975___SRGIQDLIKLDKIRAKYKEKTGKEPTLAQWAEVISIDQTTLKRRLQVGWDSFDKIINCNLRLVISVAKIYQNRGLSLQDLIQAGSMGLMRSAEKFDHSRGFKFSTYAYWWIRQSITKALTEQSRTIRLPVHIVESMNRIRASRRLLYQEHRRDPTKEEVAEVAGMTLSRLRHVTRCSRAPISLDRPV-----------------------------RKDLDKVLDTLTPREKQVVRLRYGLDDGRMKSLHEVGDHFSLSRERVRQIEVKAM
B8LQB0_______________SRGIQDLIKLDRIRAKYKEKTGKEPTLAQWAEVIGVDQKTLKMRLEVGRDSFDKIINCNLRLVISVAKNYQNRGLSLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYAYWWIRQSITKALTEQSRTIRLPVHIVESMTRIRTAWRLLYQEHKRDPTKEEVAEVAGISMTRLRHVTRCSRVPTSLDRCVGKDMDEKFSEIVADTNSESTETIVSKELFKKDLDRVLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAM

SNPs (tot: 6)

Position	A %	C %	G %	T %	Probability
204	25			75	0.996473
205	25	75			0.996473
206			75	25	0.996473
208		75		25	0.996473
230	50			50	1.0
232	50			50	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