SustainPineDB

All assemblies
Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene21323

Length: 500 nt

UniGene Fasta

>sp_v3.0_unigene21323
CGTCGTGACCTTGGCTGTCACTCAGGGTAGACGCAAAAAGGGTGATGATGATGATGATGATACTGTTGTTTCTGACAGAGGAGAGGAGGATGAGGATGAAGAAGAGGCGAGAAAAAGTAGGCTCGGTCTAAATAAAAAAGGTGATGATGATGAGGAAGGGACAAGGGGTGGTGATGTTGATTTGGATGATGATGAAGTAGAGAGAGGAGATGACTGGGAGCACGAAGAAGTATTTACAGATGATGATGAAGCAGTTGGAAATGATCCTGCTGAGAGAGAAGATTTAGCTCCTGAACTTCCAGCCCCACCCGAGATCAAGCAGGTAGATGATGAGATAGGTCTTTCGCCAGTCTTGGCCCCCAAACAGAAAGACATTCCAAAAGAGGAGCCTATAGAGACCACTCCCACTAAAGAAAAGACTTCAGCATCTTCCAGTGCCACACCAACCACAGCAAAATCGCAGAAAGGAAAAAGGAAGTCTGGCAGTGATGATGTAAAAT

Ace file of the UniGene sp_v3.0_unigene21323

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	mutant TFIIF-alpha [Arabidopsis thaliana]	-	-	1.0e-06	39%
FL-Next	Isoform 2 of Transcription initiation factor IIF subunit alpha OS=Arabidopsis thaliana GN=RAP74	-	-	0.0	54%
Sma3	Transcription Factor IIF, Rap30/Rap74, interaction	-	-	3.392e-09	-

Source	Gene names
Sma3	At4g12610; GSVIVT00008406001; LOC_Os10g10990; MtrDRAFT_AC150798g17v2; MtrDRAFT_AC150798g21v2; Os10g0188100; OsI_32946; OsJ_30924; PHYPADRAFT_50627; POPTRDRAFT_1080142; POPTRDRAFT_254823; RAP74; RCOM_0722120; RCOM_1299530; T1P17.200; TF2Falpha; VITISV_0036

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA polymerase II transcription factor activity	GO:0003702	Molecular Function	-
Sma3	catalytic activity	GO:0003824	Molecular Function	-
Sma3	transcription activator activity	GO:0016563	Molecular Function	-
Sma3	transcription initiation from RNA polymerase II promoter	GO:0006367	Biological Process	-
Sma3		GO:0045941	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Photosystem I PsaA/PsaB	IPR001280	-	-
Sma3	Transcription initiation factor IIF, alpha subunit	IPR008851	-	-
Sma3	Winged helix-turn-helix transcription repressor DNA-binding	IPR011991	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q9SU25-2

Fln msg: Distance to subject end: 162 aas, your sequence is shorter than subject: 166 - 543

Fln protein: VVTLAVTQGRRKKGDDDDDDTVVSDRGEEDEDEEEARKSRLGLNKKGDDDEEGTRGGDVDLDDDEVERGDDWEHEEVFTDDDEAVGNDPAEREDLAPELPAPPEIKQVDDEIGLSPVLAPKQKDIPKEEPIETTPTKEKTSASSSATPTTAKSQKGKRKSGSDDVK

Protein Length: 167

Fln nts: CGTCGTGACCTTGGCTGTCACTCAGGGTAGACGCAAAAAGGGTGATGATGATGATGATGATACTGTTGTTTCTGACAGAGGAGAGGAGGATGAGGATGAAGAAGAGGCGAGAAAAAGTAGGCTCGGTCTAAATAAAAAAGGTGATGATGATGAGGAAGGGACAAGGGGTGGTGATGTTGATTTGGATGATGATGAAGTAGAGAGAGGAGATGACTGGGAGCACGAAGAAGTATTTACAGATGATGATGAAGCAGTTGGAAATGATCCTGCTGAGAGAGAAGATTTAGCTCCTGAACTTCCAGCCCCACCCGAGATCAAGCAGGTAGATGATGAGATAGGTCTTTCGCCAGTCTTGGCCCCCAAACAGAAAGACATTCCAAAAGAGGAGCCTATAGAGACCACTCCCACTAAAGAAAAGACTTCAGCATCTTCCAGTGCCACACCAACCACAGCAAAATCGCAGAAAGGAAAAAGGAAGTCTGGCAGTGATGATGTAAAAT

Fln Alignment:

Contig21323___QGRRKKGXXXXXXTVVSDRGXXXXXXXXARKSRLGLNKKXXXXXXXXXXXXXXXXXXXXXXXXX--WEHEEVFTDDDEAVGND
Q9SU25-2_____________RGRKKSSGGDEEEGNVSDRGDEDEEEEASRKSRLGLNRKSNDDDDEEGPRGGDLDMDDDDIEKGDDWEHEEIFTDDDEAVGND

SNPs (tot: 20)

Position	A %	C %	G %	T %	Probability
14	10		90		0.90298
131	90	10			0.90298
132	90		10		0.90298
134	90	10			0.90298
135	90		10		0.90298
136	90			10	0.90298
137	90		10		0.90298
139	90	10			0.90298
140		10	90		0.90298
141			90	10	0.90298
147	90	10			0.90298
152		10	90		0.90298
154			90	10	0.90298
155		10	90		0.90298
178		44		55	1.0
214		66		33	1.0
253	69			30	1.0
301	87		12		0.992554
307	71	28			1.0
308	28	71			1.0

SSRs (tot: 2)

Start position	End position	Sequence	Length
43	61	TGA TGA TGA TGA TGA TGA T	19
142	153	TGA TGA TGA TGA	12

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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