SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene179

Length: 2001 nt

UniGene Fasta

>sp_v3.0_unigene179
GGTTGAAGGTGGACTTATTCTTATTCTGTGGCTAAGTTATTTAATACTTGTAAAGGAGGTTGCTGCTGCAGCTCTAATGGAGATATGAGAGATTTGAGGATACGGATATATATATAGATGGGTCCAGCCAGTTATTTTGAGAGATAAAATACCATTTGTTGAGTGTCGCTTGACAGGGAGAGACAGGGGTTTTGTTTTGTATTTTATTTATATAATTTTATAAGTCTGATGCTGTGATGGCTGAATTTGAAGCATCAGGGGGAGGAGTTACAGGAGGAATTTCTTCTCATGCACACTTTCAGCGAGAATGCCAGACTTCTGAAGAAGAGGAAAGCCGCAGCAGTGATTTAGGCGGTGGAGGAGTGGGCCGAGGGAGATCACAGACACAGATCATTCAGTCCTCCTCTGGTGGTGGCGGTGGTGGAGGAGCCGAGGGAGGTTCCGGGACTGTGGAGGTTGCCCGGAAGCCGAGGGGTCGCCCGCCTGGTTCAAAGAATAAGCCGAAGCCTCCCATTATCATAACCCGGGACAACGAAAATGCCATGAGACCTCACGTCCTGGAGATCACCGCGGGCTGCGATGTGGGGGAGAGTGTTCTGCAGTTTGTGCGGCGGAAGCAGATCGGGCTCTGCGTCATGAGCGGAAGCGGCACGGTCGCCAGCGTGACCCTTCGGCAACCCACCGTGCCCGGCGCGCCGCTAACTTTCCGCGGCCGGTTCGAAATATTGTCGCTCTCCGGCATGTATGTGCCGGCTCCCTCGGCTTCTTCTTCGTCCCCGAGCTCCCTGTCCGGGGGACTGACTATAAGCCTCGCCGGGGCACAGGGTCAGGTCGTCGGAGGAAGTGTGGCCGGCGAGCTCACCGCGGCCGGACCGGTTACCATTATTGCCTCTTCTTTTACGAATCCCTCATATCACCGCCTGCCCGCAGAACTGGACGAAGAAAACGCCGGGAACACTCAATTGCAGAACAATCAGGGAACTCTGGCAGCAGCAGCCTCTACCGGCCATGGACACCCAACACCAAATGATTCTTGCGGTGGAATGCCAATCTACAGCAATCCCATCAACACCCAGATTCCGCCTGATGTCCTCGCTTGGGCAACCAGCGCCCGCCCGCCTTACTAGGATATATACATAATATATATGTGTATATATCCTCATTCTTGGGTATGGAAATTTTGTAGCTGAATTCAGGCTGGGAGTGATTAATATGTGGAAGCTTTTGAAAACTTAAATTTGTTGGGACACACCAGCGTTTCTTTATCATTCTTGATCTGTGTTTTGCTGGGAGCTGAAGGCCTTCGTATTTCAGCATTCCCGAGACTTTACTTCTTTAGTTCAAATTTTGGAAGTTTTAAATATCATTACCTTGCATTTCTGGTCTCATGGATTCCATTCTGTGTATATATTCTCTGTGTGCGCTTCAATGTGTTATTTTTTGCCATTAGCTCAAATTTTTTGACTGTATTTAGAATAGATTATTGGGTTTTTTAAGCTTTTAACCATGGTAGGGTTTTCAATCATGGAGTTGCATCCTTCTGAACAGACTAATTTGGCACTGTGGTGAAGATACTGAGGCTTCTTCTTCTTCTTAGCCGGGGATTTGGCGGTGTGATCTCAAAATATTCGACATCAGTAGTCCTCCAGAAAAGGGTTCCAACCCAATGAATTTGCCTAGTCCTTGTCAGTTGTGGGGGTCTTTGCAAACACAAGAGAACGCAGTTTCGTCAAAGATATCTAAATGTCAGACTGTTTATCATCTTGTGTACCACAAAAGTGTGTAGTGTCAGAAGGCTTCTTGCAAATGTTGCAGCATGTACATGACCTTTAATCAGAAATTTGGCTTCTGGCCATGAAAGGGACGCTACACAAAGCTCTATGGTCCCAAGTTGACTGCACCCATTTGATGTTTTGGTTTGTAACTCAAAGCAAACTCTTTAAATTGTTCAGATTCCAGCTCTTTGAATTTATATACAGATGGTTTACAGATACTGTCTAT

Ace file of the UniGene sp_v3.0_unigene179

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	DNA binding protein, putative n=1 Tax=Ricinus communis RepID=B9STJ6_RICCO	-	-	2.0e-39	44%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	81%
Sma3	DNA-binding protein-like	-	-	8.063e-23	-

Source	Gene names
Sma3	23.t00073; 40.t00056; 46C02.8; AHL15; AHL16; AHL17; AHL18; AHL19; AHL20; AHL21; AHL22; AHL23; AHL24; AHL25; AHL28; AHL29; AT4g17800; AT4g22810; AT4g35390; At1g14490; At1g76500; At2g35270; At2g42940; At2g45430; At3g04570; At4g14465; At4g14465/FCAALL.196; A

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	sequence-specific DNA binding transcription factor activity	GO:0003700	Molecular Function	-
Sma3	oxidoreductase activity	GO:0016491	Molecular Function	-
Sma3	photomorphogenesis	GO:0009640	Biological Process	-
Sma3	negative regulation of gibberellic acid mediated signaling pathway	GO:0009938	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Pyridine nucleotide-disulphide oxidoreductase, class-II	IPR000103	-	-
Sma3	Smr protein/MutS2 C-terminal	IPR002625	-	-
Sma3	Pentatricopeptide repeat	IPR002885	-	-
Sma3	Domain of unknown function DUF296	IPR005175	-	-
Sma3	Predicted AT-hook DNA-binding	IPR014476	-	-
Sma3	AT hook, DNA-binding motif	IPR017956	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT4G17800.1	Predicted AT-hook DNA-binding family protein chr4:9895549-9896427 REVERSE LENGTH=292	52%
RefSeq	Arabidopsis thaliana	NP_193515.1	putative AT-hook DNA-binding family protein [Arabidopsis thaliana]	52%
RefSeq	Populus trichocarpa	XP_002314642.1	predicted protein, partial [Populus trichocarpa]	52%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: D5AAA1

Fln msg:

Fln protein: MAEFEASGGGVTGGISSHAHFQRECQTSEEEESRSSDLGGGGVGRGRSQTQIIQSSSGGGGGGGAEGGSGTVEVARKPRGRPPGSKNKPKPPIIITRDNENAMRPHVLEITAGCDVGESVLQFVRRKQIGLCVMSGSGTVASVTLRQPTVPGAPLTFRGRFEILSLSGMYVPAPSASSSSPSSLSGGLTISLAGAQGQVVGGSVAGELTAAGPVTIIASSFTNPSYHRLPAELDEENAGNTQLQNNQGTLAAAASTGHGHPTPNDSCGGMPIYSNPINTQIPPDVLAWATSARPPY*

Protein Length: 298

Fln nts: GGTTGAAGGTGGACTTATTCTTATTCTGTGGCTAAGTTATTTAATACTTGTAAAGGAGGTTGCTGCTGCAGCTCTAATGGAGATATGAGAGATTTGAGGATACGGATATATATATAGATGGGTCCAGCCAGTTATTTTGAGAGATAAAATACCATTTGTTGAGTGTCGCTTGACAGGGAGAGACAGGGGTTTTGTTTTGTATTTTATTTATATAATTTTATAAGTCTGATGCTGTG_-_ATGGCTGAATTTGAAGCATCAGGGGGAGGAGTTACAGGAGGAATTTCTTCTCATGCACACTTTCAGCGAGAATGCCAGACTTCTGAAGAAGAGGAAAGCCGCAGCAGTGATTTAGGCGGTGGAGGAGTGGGCCGAGGGAGATCACAGACACAGATCATTCAGTCCTCCTCTGGTGGTGGCGGTGGTGGAGGAGCCGAGGGAGGTTCCGGGACTGTGGAGGTTGCCCGGAAGCCGAGGGGTCGCCCGCCTGGTTCAAAGAATAAGCCGAAGCCTCCCATTATCATAACCCGGGACAACGAAAATGCCATGAGACCTCACGTCCTGGAGATCACCGCGGGCTGCGATGTGGGGGAGAGTGTTCTGCAGTTTGTGCGGCGGAAGCAGATCGGGCTCTGCGTCATGAGCGGAAGCGGCACGGTCGCCAGCGTGACCCTTCGGCAACCCACCGTGCCCGGCGCGCCGCTAACTTTCCGCGGCCGGTTCGAAATATTGTCGCTCTCCGGCATGTATGTGCCGGCTCCCTCGGCTTCTTCTTCGTCCCCGAGCTCCCTGTCCGGGGGACTGACTATAAGCCTCGCCGGGGCACAGGGTCAGGTCGTCGGAGGAAGTGTGGCCGGCGAGCTCACCGCGGCCGGACCGGTTACCATTATTGCCTCTTCTTTTACGAATCCCTCATATCACCGCCTGCCCGCAGAACTGGACGAAGAAAACGCCGGGAACACTCAATTGCAGAACAATCAGGGAACTCTGGCAGCAGCAGCCTCTACCGGCCATGGACACCCAACACCAAATGATTCTTGCGGTGGAATGCCAATCTACAGCAATCCCATCAACACCCAGATTCCGCCTGATGTCCTCGCTTGGGCAACCAGCGCCCGCCCGCCTTACTAG___GATATATACATAATATATATGTGTATATATCCTCATTCTTGGGTATGGAAATTTTGTAGCTGAATTCAGGCTGGGAGTGATTAATATGTGGAAGCTTTTGAAAACTTAAATTTGTTGGGACACACCAGCGTTTCTTTATCATTCTTGATCTGTGTTTTGCTGGGAGCTGAAGGCCTTCGTATTTCAGCATTCCCGAGACTTTACTTCTTTAGTTCAAATTTTGGAAGTTTTAAATATCATTACCTTGCATTTCTGGTCTCATGGATTCCATTCTGTGTATATATTCTCTGTGTGCGCTTCAATGTGTTATTTTTTGCCATTAGCTCAAATTTTTTGACTGTATTTAGAATAGATTATTGGGTTTTTTAAGCTTTTAACCATGGTAGGGTTTTCAATCATGGAGTTGCATCCTTCTGAACAGACTAATTTGGCACTGTGGTGAAGATACTGAGGCTTCTTCTTCTTCTTAGCCGGGGATTTGGCGGTGTGATCTCAAAATATTCGACATCAGTAGTCCTCCAGAAAAGGGTTCCAACCCAATGAATTTGCCTAGTCCTTGTCAGTTGTGGGGGTCTTTGCAAACACAAGAGAACGCAGTTTCGTCAAAGATATCTAAATGTCAGACTGTTTATCATCTTGTGTACCACAAAAGTGTGTAGTGTCAGAAGGCTTCTTGCAAATGTTGCAGCATGTACATGACCTTTAATCAGAAATTTGGCTTCTGGCCATGAAAGGGACGCTACACAAAGCTCTATGGTCCCAAGTTGACTGCACCCATTTGATGTTTTGGTTTGTAACTCAAAGCAAACTCTTTAAATTGTTCAGATTCCAGCTCTTTGAATTTATATACAGATGGTTTACAGATACTGTCTAT

Fln Alignment:

Contig179___MAEFEASGGGVTGGISSHAHFQRECQTSEEEEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX--RKPRGRPPGSKNKPKPPIIITRDNENAMRPHVLEITAGCDVGESVLQFVRRKQIGLCVMSGSGTVASVTLRQPTVPGAPLTFRGRFEILSLSGMYVXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXELTAAGPVTIIASSFTNPSYHRLPAELDEENAGNTQLQNNQGTLAAAASTGHGHPTPNDSCGGMPIYSNPINTQIPPDVLAWATSAR
D5AAA1_____________MAEFQAAAA--TGGISSHVHFQRECQTSEEEESRSSDLGGGGGGTGKGISQTQIIQSSSGGGGGGGAEGGSGTVEVARKPRGRPPGSKNKPKPPIIITRDNENAMRPHVLEVAVGCDVGESVLQFVRRRQIGLCIMSGSGTVASVTLRQPTVPGAPLNFRGRFEILSLSGMYLPSPSSSSSSSSSLSGGLTISLAGAQGQVVGGSVAGELTAAGPVTIIAASFTSPSYHRLPAELDEENAANTQLQNNQGSL--AASTGHGHPLPNDSCGGMAIYSNPINSQLSPDALAWATGLR

SNPs (tot: 6)

Position	A %	C %	G %	T %	Probability
362	85		14		0.993533
370	14		85		0.993533
744	33			66	0.997452
748			66	33	0.997452
1306	16	83			0.994512
1307	20			80	0.995493

SSRs (tot: 1)

Start position	End position	Sequence	Length
1581	1595	CTT CTT CTT CTT CTT	15

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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