SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene2504

Length: 2351 nt

UniGene Fasta

>sp_v3.0_unigene2504
CGCTAAGCAGAATTTTTAATGTAAATAGATTCGTTCTATAGTCCCACCCTACTTCTGAATCTCACAACGCAGCCAAGTTTAGAGGATCCGGAGCGTCCGCTTCGGCTGAACTTTCCAATAAATAAATTCCTCTTCCAACCCATCTAGCAAAACTGAGCGAGGAAAACAGGGCAGGCTGTTTGTCTCGAGTCCTAGGAAATCGACCAACCTGCAGAAATGAAACAAACTATGGTGAAGAAGACGCACAGGTGAGGGTTCAAATCTCAATTGTTTTTCCGTTCGAGTTCGTTGATGGTGTAGGGTTTAGGGTTCTGCCATGGCTACTGATAATAACAATAATAGCAACCTGGCCGGGCGCATAGGAGGAGGTGGTGTTGGATTACCCACTGGGCCGAATCCCTCTTCCATTGCAACAAATATGGCGGGGGTTTCGAACCCTGGTCCTAACACCACCGCACACGTGACAAACCTCCACTCAACAATTACGCATTCAACTCCTGCATCCTCACACTTCCAGGTCCAGCCACAGTTACAGTCACAGACCCAATCCCAGTTGGCTGCTACGCCACCTCAACCTGGCGTTTCCACGCCATCAAACCCTAATTCTGCAAACCCTAAGCGTGGTCAGCAGAAGCCTCCTGTCCGCCCCATGGGAGCCACATCTCTAACTGGAAATCCTCAATCGTCCCCATTCAAACCCACGGAGTTAGCCCCGGCCCCTCGGAGGAAGAAGCGCAAGGCTCCCGAGAAGCAGGTTCCCGACCGAGTCGCTGCGCTACTACCGGAGTCCGCTTTGTATACCCAGTTGCTTGAATTTGAGGCTAGGGTGGACGCGGCCCTGGCCAGAAAGAAGACTGATATCCAGGAAGCCCTGAAAAATCCGCCCTCCCTTCAGCGCACGCTGCGAATCTATGTTTTCAACACCTTTGCAAATCAAAACCACCACGCCCGTGGTACCGATGACAAGCAACATATGTTGGAGCAACCGTCGTGGACCCTGAGAATTCTCGGAAGGATTCTAGAGGATGGCATAGAGACGGATGCTTCTGCTTCCGCCGGCACTATTCCAAAGCAACAGAGTTCATCGTTTCCCAAGTTTTCGTCTTTCTTTAAGAGGATCACAGTCAATTTGGATCCTAGTCTGTATCCTGATAACCCTGTCATTATTTGGGATAATGTTAGATCACCGACTCCTGTGGAAGGGTTTGAGATAAAGCGGAAGGGTAGCAAAGAATTCACTGCATCTATTCGATTGGAAATGAATTATGTTCCGGAGAAATTCAAGCTCTCGCCTTCCTTGACTGAACTTCTCGGCATTGAGGTGGATACAAGACCGAGAATCATTGCTGCACTTTGGCAGTATGTGAAAGCTAAGAAGCTTCAACATCCTTCTGATCCATCGGTCATTAACTGTGACCCACCATTGCAGAGGATTTTCGGGGGCGAGAAGATTAAGTTTTCTTTTATATCCCAGAAGCTTCCTCAGCATCTCTATCCTCCGCAGCCCATCCACTTAGAGCACAAGATAAGATTGTCAGGAAATAGTCCTGTTGGCCATGCTTGCTATGATGTTTTAGTTGATGTTCCTTTCCCATTGCAGAAGGAAATGAGTGCGTTTTTGGCTAATATTGAGAAGCACAAGGACATTGATGCCTGCGATGAAGCAATTTGTGTAGCAATTAAAAAGATTCATGAGCATCGTCGCAGAAGAGCATTTTATCTGGGCTTTAGTCAATCTCCTGTGGAGTTTATAAATGCTTTGATAGCCTCACAGAGCAGGGATTTAAAGCTTGTTGCCGGGGAAGCAAGCCGGAATGCTGAGAAGGAGGGCAGGTCTGACTTCTACAATCAACCATGGGTTGAAGATGCAATCATTCGTTATCTCAACCGCAAGCCACCAGCAGGGAATGAACCTCCTGGAGCTACGTAACAGCTTGATTCTTGAGATTAGAAAGGGGAGAGCTTATAGAACTCGGAGTCAGCAATATGTTGCTTTTCCAGTATGTCAAATGAGCATAGTGACTTTTAATAGTAGTTATATGCATTTATGCCCCCTCTGGTTTATAGTAAAAGTTGTTCCAATAAATGACTGTTCTGGCTTGGAAAATTGCCACTCAGTTTGTATTAATTTGTTTGATGTATATTATATACACAACCATGTGATCAAATGGCATCCTCTACTTCTTAAATTCAACTGTCATGGACCAGTGAATGGTAAGTTGTTCCATTAATCGACTGTTGTTGCCTAGTAAAGCGCCATTAATTCTGTATTATTTGTTTGATGTATATTATATAGACAAGCATGTGATCAAATGGCATGACGAGCCGTTTAATATTACAATGTCTCTTTA

Ace file of the UniGene sp_v3.0_unigene2504

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	SWI/SNF complex component SNF12 homolog n=2 Tax=Arabidopsis RepID=SNF12_ARATH	-	-	0.0	64%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	37%
Sma3	SWI/SNF transcription activation complex subunit	-	-	4.502e-14	-

Source	Gene names
Sma3	At3g01890/F28J7_22; At5g14170; CHC1501; CHC1502; CHC1503; CHC901; CHC902; CHC903; CHC904; F1C9.33; F28J7.22; GSVIVT00017931001; GSVIVT00037842001; MUA22.17; OSIGBa0092E09.5; OSJNBa0072D21.8; Os04g0382100; OsI_15624; OsJ_14531; PHYPADRAFT_113811; PHYPADRAF

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	-
Sma3	chromatin modification	GO:0016568	Biological Process	-
Sma3	root development	GO:0048364	Biological Process	-

Source	InterPros	Term	Type	e value	Identity
Sma3	SWIB/MDM2 domain	IPR003121	-	0.0	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT5G14170.1	CHC1 SWIB/MDM2 domain superfamily protein chr5:4568696-4570444 REVERSE LENGTH=534	67%
RefSeq	Arabidopsis thaliana	NP_196921.1	SWI/SNF complex component SNF12-like protein [Arabidopsis thaliana]	67%
RefSeq	Populus trichocarpa	XP_002298619.1	chromatin remodeling complex subunit [Populus trichocarpa]	67%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: A9NRD4

Fln msg: your sequence is longer than subject: 538 - 129

Fln protein: MATDNNNNSNLAGRIGGGGVGLPTGPNPSSIATNMAGVSNPGPNTTAHVTNLHSTITHSTPASSHFQVQPQLQSQTQSQLAATPPQPGVSTPSNPNSANPKRGQQKPPVRPMGATSLTGNPQSSPFKPTELAPAPRRKKRKAPEKQVPDRVAALLPESALYTQLLEFEARVDAALARKKTDIQEALKNPPSLQRTLRIYVFNTFANQNHHARGTDDKQHMLEQPSWTLRILGRILEDGIETDASASAGTIPKQQSSSFPKFSSFFKRITVNLDPSLYPDNPVIIWDNVRSPTPVEGFEIKRKGSKEFTASIRLEMNYVPEKFKLSPSLTELLGIEVDTRPRIIAALWQYVKAKKLQHPSDPSVINCDPPLQRIFGGEKIKFSFISQKLPQHLYPPQPIHLEHKIRLSGNSPVGHACYDVLVDVPFPLQKEMSAFLANIEKHKDIDACDEAICVAIKKIHEHRRRRAFYLGFSQSPVEFINALIASQSRDLKLVAGEASRNAEKEGRSDFYNQPWVEDAIIRYLNRKPPAGNEPPGAT*

Protein Length: 539

Fln nts: CGCTAAGCAGAATTTTTAATGTAAATAGATTCGTTCTATAGTCCCACCCTACTTCTGAATCTCACAACGCAGCCAAGTTTAGAGGATCCGGAGCGTCCGCTTCGGCTGAACTTTCCAATAAATAAATTCCTCTTCCAACCCATCTAGCAAAACTGAGCGAGGAAAACAGGGCAGGCTGTTTGTCTCGAGTCCTAGGAAATCGACCAACCTGCAGAAATGAAACAAACTATGGTGAAGAAGACGCACAGGTGAGGGTTCAAATCTCAATTGTTTTTCCGTTCGAGTTCGTTGATGGTGTAGGGTTTAGGGTTCTGCC_-_ATGGCTACTGATAATAACAATAATAGCAACCTGGCCGGGCGCATAGGAGGAGGTGGTGTTGGATTACCCACTGGGCCGAATCCCTCTTCCATTGCAACAAATATGGCGGGGGTTTCGAACCCTGGTCCTAACACCACCGCACACGTGACAAACCTCCACTCAACAATTACGCATTCAACTCCTGCATCCTCACACTTCCAGGTCCAGCCACAGTTACAGTCACAGACCCAATCCCAGTTGGCTGCTACGCCACCTCAACCTGGCGTTTCCACGCCATCAAACCCTAATTCTGCAAACCCTAAGCGTGGTCAGCAGAAGCCTCCTGTCCGCCCCATGGGAGCCACATCTCTAACTGGAAATCCTCAATCGTCCCCATTCAAACCCACGGAGTTAGCCCCGGCCCCTCGGAGGAAGAAGCGCAAGGCTCCCGAGAAGCAGGTTCCCGACCGAGTCGCTGCGCTACTACCGGAGTCCGCTTTGTATACCCAGTTGCTTGAATTTGAGGCTAGGGTGGACGCGGCCCTGGCCAGAAAGAAGACTGATATCCAGGAAGCCCTGAAAAATCCGCCCTCCCTTCAGCGCACGCTGCGAATCTATGTTTTCAACACCTTTGCAAATCAAAACCACCACGCCCGTGGTACCGATGACAAGCAACATATGTTGGAGCAACCGTCGTGGACCCTGAGAATTCTCGGAAGGATTCTAGAGGATGGCATAGAGACGGATGCTTCTGCTTCCGCCGGCACTATTCCAAAGCAACAGAGTTCATCGTTTCCCAAGTTTTCGTCTTTCTTTAAGAGGATCACAGTCAATTTGGATCCTAGTCTGTATCCTGATAACCCTGTCATTATTTGGGATAATGTTAGATCACCGACTCCTGTGGAAGGGTTTGAGATAAAGCGGAAGGGTAGCAAAGAATTCACTGCATCTATTCGATTGGAAATGAATTATGTTCCGGAGAAATTCAAGCTCTCGCCTTCCTTGACTGAACTTCTCGGCATTGAGGTGGATACAAGACCGAGAATCATTGCTGCACTTTGGCAGTATGTGAAAGCTAAGAAGCTTCAACATCCTTCTGATCCATCGGTCATTAACTGTGACCCACCATTGCAGAGGATTTTCGGGGGCGAGAAGATTAAGTTTTCTTTTATATCCCAGAAGCTTCCTCAGCATCTCTATCCTCCGCAGCCCATCCACTTAGAGCACAAGATAAGATTGTCAGGAAATAGTCCTGTTGGCCATGCTTGCTATGATGTTTTAGTTGATGTTCCTTTCCCATTGCAGAAGGAAATGAGTGCGTTTTTGGCTAATATTGAGAAGCACAAGGACATTGATGCCTGCGATGAAGCAATTTGTGTAGCAATTAAAAAGATTCATGAGCATCGTCGCAGAAGAGCATTTTATCTGGGCTTTAGTCAATCTCCTGTGGAGTTTATAAATGCTTTGATAGCCTCACAGAGCAGGGATTTAAAGCTTGTTGCCGGGGAAGCAAGCCGGAATGCTGAGAAGGAGGGCAGGTCTGACTTCTACAATCAACCATGGGTTGAAGATGCAATCATTCGTTATCTCAACCGCAAGCCACCAGCAGGGAATGAACCTCCTGGAGCTACGTAA___CAGCTTGATTCTTGAGATTAGAAAGGGGAGAGCTTATAGAACTCGGAGTCAGCAATATGTTGCTTTTCCAGTATGTCAAATGAGCATAGTGACTTTTAATAGTAGTTATATGCATTTATGCCCCCTCTGGTTTATAGTAAAAGTTGTTCCAATAAATGACTGTTCTGGCTTGGAAAATTGCCACTCAGTTTGTATTAATTTGTTTGATGTATATTATATACACAACCATGTGATCAAATGGCATCCTCTACTTCTTAAATTCAACTGTCATGGACCAGTGAATGGTAAGTTGTTCCATTAATCGACTGTTGTTGCCTAGTAAAGCGCCATTAATTCTGTATTATTTGTTTGATGTATATTATATAGACAAGCATGTGATCAAATGGCATGACGAGCCGTTTAATATTACAATGTCTCTTTA

Fln Alignment:

Contig2504___LSPSLTELLGIEVDTRPRIIAALWQYVKAKKLQHPSDPSVINCDPPLQRIFGG-EKIKFSFISQKLPQH
A9NRD4______________ISPAMQKFLGVSEIPRTKAIKKIWEYIKEKDLQDPANRREIVCDENLKSIFGGRERVGFLEISGLMKPH

SNPs (tot: 15)

Position	A %	C %	G %	T %	Probability
826			71	28	1.0
967		88		11	0.923564
997	11		88		0.923564
1104		84	15		0.999986
1287	83		16		0.999991
1366		9		90	0.999872
1441		92		8	0.999718
2099			93	6	0.999264
2161	97			2	0.960269
2171	53			46	1.0
2189		4		95	0.994598
2232		38		61	1.0
2258			71	28	1.0
2276		12		87	0.992554
2331		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