SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: biogeco3 v1.0

UniGene Name: biog3_v1.0_unigene445

Length: 336 nt

UniGene Fasta

>biog3_v1.0_unigene445
AATGTGTGAAGGGTATTTCAACAGTGGAGCGTGCAGTCATTAACCAAGTTAAGGGCAAGTACAACCTGTTAGTTGAAGGTACAAATCTTAAGGCAGTCATGGGTACAGAAGGAGTGGATGGGAGGAATACCAAAAGTAATCATGTTATCGAGATTGAACGAACACTCGGAATAGAGGCTGCCAGAAGGTGTATCATTGATGAAATACAATATACAATGGCAAGTCATGGGATGAGCATCGATATTCGCCATATGATGCTTCTGGCAGATGTTATGACATTCAAGGGTGAAGTTCTGGGAATAACAAGGTTTGGCATTGCAAAGATGAAAGATAGTG

Ace file of the UniGene biog3_v1.0_unigene445

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Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene5596	4/4

Source	Descriptions	Term	Type	Identity
AutoFact	DNA-directed RNA polymerase n=1 Tax=Physcomitrella patens subsp. patens RepID=A9RSV5_PHYPA	-	-	71%
FL-Next	sp=DNA-directed RNA polymerase II subunit RPB1; Arabidopsis thaliana (Mouse-ear cress).	-	-	38%
Blast2go	dna-directed rna polymerase iii subunit rpc1-like	-	-	75%

Source	ECs	Term	Type	e value	Identity
Blast2go	DNA-directed RNA polymerase.	EC:2.7.7.6	-	0.0	75%

Source	KEGGs	Term	Identity
Blast2go	Purine metabolism	00230	75%
Blast2go	Pyrimidine metabolism	00240	75%
Blast2go	Metabolic pathways	01100	75%

Source	GOs	Term	Type	Identity
Blast2go	transcription, DNA-dependent	GO:0006351	Biological Process	75%
Blast2go	DNA-directed RNA polymerase activity	GO:0003899	Molecular Function	75%
Blast2go	DNA binding	GO:0003677	Molecular Function	75%
Blast2go	ribonucleoside binding	GO:0032549	Molecular Function	75%
Blast2go	zinc ion binding	GO:0008270	Molecular Function	75%
Blast2go	nucleus	GO:0005634	Cellular Component	75%

Source	InterPros	Term	Type	Identity
Sma3	RNA polymerase, alpha subunit	IPR000722	-	-
Sma3	Glutamate/phenylalanine/leucine/valine dehydrogenase	IPR006095	-	-
Sma3	RNA polymerase, N-terminal	IPR006592	-	-
Sma3	RNA polymerase Rpb1, domain 3	IPR007066	-	-
Sma3	RNA polymerase Rpb1, domain 1	IPR007080	-	-
Sma3	RNA polymerase Rpb1, domain 5	IPR007081	-	-
Sma3	RNA polymerase Rpb1, domain 4	IPR007083	-	-
Sma3	TonB box, conserved site	IPR010916	-	-
Sma3	DNA-directed RNA polymerase III largest subunit	IPR015700	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: P18616

Fln msg: Distance to subject end: 423 aas, your sequence is shorter than subject: 111 - 1839

Fln protein: CVKGISTVERAVINQVKGKYNLLVEGTNLKAVMGTEGVDGRNTKSNHVIEIERTLGIEAARRCIIDEIQYTMASHGMSIDIRHMMLLADVMTFKGEVLGITRFGIAKMKDS

Protein Length: 112

Fln nts: AATGTGTGAAGGGTATTTCAACAGTGGAGCGTGCAGTCATTAACCAAGTTAAGGGCAAGTACAACCTGTTAGTTGAAGGTACAAATCTTAAGGCAGTCATGGGTACAGAAGGAGTGGATGGGAGGAATACCAAAAGTAATCATGTTATCGAGATTGAACGAACACTCGGAATAGAGGCTGCCAGAAGGTGTATCATTGATGAAATACAATATACAATGGCAAGTCATGGGATGAGCATCGATATTCGCCATATGATGCTTCTGGCAGATGTTATGACATTCAAGGGTGAAGTTCTGGGAATAACAAGGTTTGGCATTGCAAAGATGAAAGATAGTG

Fln Alignment:

Contig445___VKGISTVERAVINQVKG-------------KYNLLVEGTNLKAVMGTEGVDGRNTKSNHVIEIERTLGIEAARRCIIDEIQYTMASHGMSIDIRHMMLLADVMTFKGEVLGITRFGI
P18616________________LRGIPDINKVFIKQVRKSRFDEEGGFKTSEEWMLDTEGVNLLAVMCHEDVDPKRTTSNHLIEIIEVLGIEAVRRALLDELRVVISFDGSYVNYRHLAILCDTMTYRGHLMAITRHGI

SNPs (tot: 11)

Position	A %	C %	G %	T %	Probability
128	25			75	0.996473
130		75		25	0.996473
131		75	25		0.996473
132	75			25	0.996473
166	20			80	0.995493
167	20	80			0.995493
168			80	20	0.995493
170	80			20	0.995493
227		33		66	0.997452
239		66		33	0.997452
242		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