SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene27748

Length: 1794 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene27748

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	DNA-directed RNA polymerase subunit n=1 Tax=Picea sitchensis RepID=D5AAK0_PICSI	-	-	0.0	98%
FL-Next	sp=DNA-directed RNA polymerase subunit; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	98%
Sma3	DNA-directed RNA polymerase subunit	-	-	1.984e-12	-

Source	Gene names
Sma3	AT4g07950; At4g07950; CHLREDRAFT_76582; F1K3.2; MICPUCDRAFT_43884; MICPUN_78504; OJ1197_E09.8; OJ1493_H11.21; Os02g0672700; OsI_08435; OsJ_07898; Ot03g03890; PHATR_13326; PHYPADRAFT_185465; POPTRDRAFT_772435; RCOM_0700890; RPC11; THAPSDRAFT_37100;

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	cytoplasm	GO:0005737	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	DNA-directed RNA polymerase activity	GO:0003899	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	transcription regulator activity	GO:0030528	Molecular Function	-
Sma3		GO:0045449	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Zinc finger, TFIIS-type	IPR001222	-	-
Sma3	DNA-directed RNA polymerase, M/15kDa subunit	IPR001529	-	-
Sma3	DNA-directed RNA polymerase M, 15kDa subunit, conserved site	IPR019761	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT4G07950.1	DNA-directed RNA polymerase, subunit M, archaeal chr4:4798910-4799510 FORWARD LENGTH=106	1.0e-26	49%
RefSeq	Arabidopsis thaliana	NP_192535.1	DNA-directed RNA polymerase, subunit M [Arabidopsis thaliana]	2.0e-26	49%
RefSeq	Populus trichocarpa	XP_002318427.1	predicted protein [Populus trichocarpa]	1.0e-35	54%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: D5AAK0

Fln msg:

Fln protein: MEFCPTCGNLLQIEHPYMSQSLRFFCPTCPYIFPIERKISKKLQLKQKEVDDVFGGEEAWKNVDRTEATCPKCSFGKAFFMQIQIRSADEPMSTFYKCCNNQCQFRWRQD*

Protein Length: 112

Fln nts: AGTAGACACTTCTATCTGATGTTGCAGAAGTCGTCTACAATCTTTTACGTGACAGCGAAACATTAGAAAGCGGGCGATTTATTGATGAAAACGGCGGATTTTTTGCGCGGTTCGAGTTAGATTTTGAGAAATCGAGTCGGCTCAGATGTTAATCCTCGAACTGGTAAAAGCTCCGTAATTTATAATGAAAACGTCAGGGCTGGGGTTTTCAAGTCATGCTTCATGGTTCAGAGGCGCCCGGAATGGATTACTGAACAGAGTGAAAGGAGGCAGATAATAGATACTAATAATCTTTTGATCAACTATATCCATTTCTACCTTCGTTGACATCGGTCTATAGATTATAAATTTAATAGAAGCAAGTTTTACACGAACCGGAGCTTCACAGTCTTTGACTTTGTTTGGGTTTAATTCACATGAGCGATCTGGGATCTGAGAGGGGAAAAAAGAAAAGAGTCGTAGAGGGCGGCGACAATTTTTTCAACCTGCGAGCTGCCCTTGTCCACATTGAGCGCTTCTCACAAGACGCCTGCGGACTTTGTGCTTCTTTTCTTCACCAAAGCTTTATTATCTCAGCGTCACCCGCTGGCAGCACTATCTTCACAGTGAACTTGTACAGGCTCAATCAATAGTGAACTCGATCTCTGCAGGCTCGACAGGGAGAAGTTGCAGGCTTAAGCCGGGCTTAGACCTACTGTGTTTAATCTCGAACATTGACAAAAGGCACAAGACTTTTGACCTCTGCATTTGCTGCCTTGTCTCCACTATTCACAGTCAGTCAGTCGACTATTCTACGGACGAGGAGCGGGATAAGAGAGAGCAGGTGCTATATTGCCGCTGCCTGTTCCCCCCTTTGTGTTCTGGTCTGCTGGGTAAGAGAATAGCA_-_ATGGAATTCTGCCCCACATGTGGAAACTTGCTACAAATTGAGCATCCGTATATGAGTCAGAGCTTGCGTTTTTTCTGTCCAACTTGCCCGTATATATTTCCAATTGAACGCAAGATTAGCAAGAAACTTCAGCTGAAACAAAAGGAGGTAGATGATGTATTTGGTGGAGAGGAGGCATGGAAAAATGTTGACCGTACAGAAGCAACATGCCCTAAATGCAGTTTTGGTAAAGCATTCTTCATGCAAATTCAGATAAGATCAGCTGATGAACCAATGTCGACTTTCTACAAGTGTTGCAATAATCAATGCCAGTTCAGGTGGCGACAGGATTGA___GATCCGCTGTACTGCATTGCACTGTTTATTCTTCTTGTATAAGCATTGAGTGAAGCTTCGTAATGGTTCTGACTCCTGAGAAACCATGTGAAATAGAGTTAGTTTTATGGATGATATCTTTGGAATAACTGTTTATGGTTATCTGTCAAAACTTCCGATGGGGATTTCTGTCAAACCGAGTTCTCAAGGAAAGATCCTCATGAACCATTCTATGCGATCCAGTTATCAGTGTTCACTGTTTCGGTGTTTCCTAACAGTGGTAGGTCGTACCTGTAGATGTGAAGTGCCTCCCCATTCACGAATACCACTTCTCTTATGCCAGGAGCATGCATTTACTACTGAAAAGTCCTCCATGAAAATATTAATACAGGTCACTTTAATGCTGCGTGCAAAATTTTCTGTACCCTTCGCAATGTAGTCTTTTACAACATGGTAGGTTTTTGGGCATCTGAGGATGCTAAAAATAATTCCCCATTGTAATACAAAACACGGATTGATCAAGGAGTAATGATGCTTGGTTACTATAAATATCTTTATCTTTGAAGTTCAACTATTATCAACTTTTAGCTTGTGTT

Fln Alignment:

Contig27748___MEFCPTCGNLLQIEHPYMSQSLRFFCPTCPYIFPIERKISKKLQLKQKEVDDVFGGEEAWKNVDRTEATCPKCSFGKAFFMQIQIRSADEPMSTFYKCCNNQCQFRWRQD
D5AAK0_______________MEFCPTCGNLLQIEHPYMSQSLRFFCPTCPYVFPIERKISKKLQLKKKEVDDVFGGEEAWKNVDRTEATCPKCSFGKAFFMQIQIRSADEPMSTFYKCCNNQCQFRWRQD

SNPs (tot: 48)

Position	A %	C %	G %	T %	Probability
139			66	33	0.997452
144	33	66			1.0
150		33		66	0.997452
154		33	66		1.0
155		66	33		0.997452
170	33		66		0.997452
173		66		33	0.997452
174		66		33	0.997452
182	66			33	0.997452
183		33		66	0.997452
186			33	66	0.997452
187		33	66		0.997452
188	66		33		0.997452
194			33	66	0.997452
203	33		66		0.997452
213			66	33	0.997452
215		33		66	1.0
217		33		66	0.997452
233			75	25	0.996473
237		75	25		0.996473
269	25		75		0.996473
284		75		25	0.996473
285	25			75	0.996473
298	88			11	0.923564
318		88		11	0.923564
330		11		88	0.923564
413	16			83	0.994512
431	66	33			1.0
625		80		20	0.995493
637	80		20		0.995493
766	75		25		0.996473
931		83		16	0.994512
996	50		50		1.0
1086	66			33	1.0
1097		16	83		0.994512
1226		57		42	1.0
1228		57		42	1.0
1241		66		33	1.0
1258	33		66		1.0
1271	18		81		0.999994
1294		77	22		0.999999
1295	22			77	0.999999
1296	22	77			0.999999
1300	87			12	0.992554
1481			78	21	1.0
1608	10		90		0.90298
1633		87		12	0.992554
1642		87	12		0.992554

SSRs (tot: 1)

Start position	End position	Sequence	Length
772	784	CAGT CAGT CAGT C	13

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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