SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene224

Length: 2058 nt

This UniGene was originaly assembled in antisense
ACE File: antisense
Fasta: sense

UniGene Fasta (sense)

>sp_v3.0_unigene224
GAAAGGCAACACTTTACGAGGATGCTGTTGTTGCATTTAACACTATGAAAGAAGTAGGAAGTGAGCCAAACAGAGATACCTACAACTCTCTTATTCACATGTATTCTAGAGGAGGGCTTTTTTTGGAGTCTCATGGAATATTTTGGCTAATGCATGAGGCGGGTGTTGAAAAGAATGTTGAGACATTCAATGGTTTGATTGAAGCATACGGCAGGGCTGGTGATTTTGTCGAGGCTTTGAAGATATTTAGAGATATGAAGCTAGCAAAATGTCCTCCAAATGAGCAAACTCACGAGGCAGTCTTGAATGTTTATTGCATAGCAGGTCGGATAGATGAAGGCAGCGCATATTTTTTGGAAATCAAAGAACAGGGACTGGTGCCCAGTATCACAGCGTATTGTCTAATGCTCTCTATGTATGCAAGGTCGAGTAGCTGGGAAGATGCTTATGAATTACTAGAAGAAATGCAGGCACATAAAATGCCCAATGCTCATAGAGTGATTGGGATAATGATCAACGGTGATTATGATGACCTGCCAAACTGGCAGATGGTTGATTATGTATTTGATAATTTAAAATCACAGGGTACTGGAATAGGAATGACATTCTACAATGTGCTTTTGGACACATTATGGTGGTTTGGCCAAAAGGCAAGGGCTGCCAAAGTACTTGAAGAGGCAAGGAAGCGAGGAGTTTTCCTGGAAGCATTTCGACAAACTAAGTTGGTATGGTCATTGGATGTACACAGAATGTCTGTTGGTGCTGCATTGACATTCCTCTCAATCTGGCTTATTGATATACGAAGATTGGTTCTTGATGGAGAAGATATTCCTCAACTTGCCAGCATAGTCACTGTACAAGGTGAATTGGGACAGAAAAATGATGCTAGAGGGTTTCCCATTCCAAAGGCAGTGCATTCATTTCTCAAGGACCTAGCAGCACCCTTTAGCTATGCTGCATGGAACAATGGCCGCATTATATGCAATCAGGTTCAATTAAAGCGATGGCTTTCAAAGTCCTATTTGGATCAAGCTATTGCTCTTGAAAATTCCTTGCTTCCAATTCCCGGTGCGATGATAGGCAGCACATATGTAGAGGAAAAAGAGTTTGGCAATGAAGAAATTAACTCCAAAGAGAAGGAAATCACAAGAACAGAGTTAACATCAGTGTAAAAGTTGTCCTCTTTGAAAATTGCATTCTGAAATTGCTTTGAATACTAAAGATCCAAAATATGAATCGAGGTCCCAATTCTGAAGCTAAGTGATGCCTGTAGTTGATTACAATATTGGTTCCTGTCATACGGATGTTCATGTTTGAGGGACCACAGAGGATGCGGGCCTAAAAATCTCAAGGTTGCAAAGCGGAAAAACCTTTTGGGATTGCAAAACAAGGAAAGAAATTGTTAGTAACATGAACCTGTTATCCCAGTCCATTCCATTATCAAAAGTCCAGATCGGATCAGTACTCTTCTCAGTAACCTTCCCTAGTTTTGTATATTGCTCACTATAAGCATCTTGGAATTCAATGATATGATATAGGACTTGAAGTCTTTACAGAGATCTGTTACTTTTGTTCAGTTCGGTTTGGGTATTGCATTATTAATATTTTGTCAGTAGTGAATTTAATTGGGAATTTTTGTTTATTAACTTCCTCGTTGATACAATGTTACCATATGGATCATAAACCAAACAAAGCTAAAATAGGGTTTGGGAGCCTTTTTTACATCCACACTCGTTTAGAAGCTTAGCAGCAGGTATTTCAGGGATTGTTCCACTTGTTGAAACTCGAAGTACTTTTTTGAGATACCTAATGAACTGGACAATTTATTAGTTTCAGTGCAATCAAACATTTTTTTGAAAGTCAATGTTGATAAGACATGGACCTTTTGTCATTACAAGATATCTGAGTACTTGAGTGGCCTGCCATGGATCAAAGGCTGTGTCCTCAACTTAGTTTAGTTGGAAGGGATGATAGTGAAAAACAAGGCCACTTGTTATTACTTTTGTGCTGTGAAGTTTAATTCAGAACAGCTGGATATGATCTGCGGCTCATCTTGAT

Ace file of the UniGene sp_v3.0_unigene224 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	plastid transcriptionally active 2 [Arabidopsis thaliana] sp\|Q9S7Q2.1\|PP124_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g74850, chloroplastic; AltName: Full=Protein PLASTID TRANSCRIPTIONALLY ACTIVE 2; Flags: Precursor gb\|AAD55291.1\|	-	-	0.0	49%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	25%

Source	Gene names
Sma3	At1g74850; F25A4.18; F9E10.30; GSVIVT00016182001; LOC_Os03g60910; OSJNBb0081B07.6; Os03g0824100; OsI_14128; OsJ_13175; PHYPADRAFT_175123; POPTRDRAFT_1101177; PTAC2; RCOM_1512860;

Source	GOs	Term	Type	Identity
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	plastid chromosome	GO:0009508	Cellular Component	-
Sma3	binding	GO:0005488	Molecular Function	-
Sma3	transcription from plastid promoter	GO:0042793	Biological Process	-
Sma3	positive regulation of transcription, DNA-dependent	GO:0045893	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Smr protein/MutS2 C-terminal	IPR002625	-	-
Sma3	Pentatricopeptide repeat	IPR002885	-	-
Sma3	Tetratricopeptide-like helical	IPR011990	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G74850.1	PTAC2 plastid transcriptionally active 2 chr1:28119237-28122314 REVERSE LENGTH=862	49%
RefSeq	Arabidopsis thaliana	NP_177623.1	plastid transcriptionally active 2 [Arabidopsis thaliana]	49%
RefSeq	Populus trichocarpa	XP_002322139.1	predicted protein [Populus trichocarpa]	48%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: coniferopsida.fasta

Fln subject: A9NXP3

Fln msg: your sequence is longer than subject: 390 - 278

Fln protein: KATLYEDAVVAFNTMKEVGSEPNRDTYNSLIHMYSRGGLFLESHGIFWLMHEAGVEKNVETFNGLIEAYGRAGDFVEALKIFRDMKLAKCPPNEQTHEAVLNVYCIAGRIDEGSAYFLEIKEQGLVPSITAYCLMLSMYARSSSWEDAYELLEEMQAHKMPNAHRVIGIMINGDYDDLPNWQMVDYVFDNLKSQGTGIGMTFYNVLLDTLWWFGQKARAAKVLEEARKRGVFLEAFRQTKLVWSLDVHRMSVGAALTFLSIWLIDIRRLVLDGEDIPQLASIVTVQGELGQKNDARGFPIPKAVHSFLKDLAAPFSYAAWNNGRIICNQVQLKRWLSKSYLDQAIALENSLLPIPGAMIGSTYVEEKEFGNEEINSKEKEITRTELTSV*

Protein Length: 391

Fln nts: GAAAGGCAACACTTTACGAGGATGCTGTTGTTGCATTTAACACTATGAAAGAAGTAGGAAGTGAGCCAAACAGAGATACCTACAACTCTCTTATTCACATGTATTCTAGAGGAGGGCTTTTTTTGGAGTCTCATGGAATATTTTGGCTAATGCATGAGGCGGGTGTTGAAAAGAATGTTGAGACATTCAATGGTTTGATTGAAGCATACGGCAGGGCTGGTGATTTTGTCGAGGCTTTGAAGATATTTAGAGATATGAAGCTAGCAAAATGTCCTCCAAATGAGCAAACTCACGAGGCAGTCTTGAATGTTTATTGCATAGCAGGTCGGATAGATGAAGGCAGCGCATATTTTTTGGAAATCAAAGAACAGGGACTGGTGCCCAGTATCACAGCGTATTGTCTAATGCTCTCTATGTATGCAAGGTCGAGTAGCTGGGAAGATGCTTATGAATTACTAGAAGAAATGCAGGCACATAAAATGCCCAATGCTCATAGAGTGATTGGGATAATGATCAACGGTGATTATGATGACCTGCCAAACTGGCAGATGGTTGATTATGTATTTGATAATTTAAAATCACAGGGTACTGGAATAGGAATGACATTCTACAATGTGCTTTTGGACACATTATGGTGGTTTGGCCAAAAGGCAAGGGCTGCCAAAGTACTTGAAGAGGCAAGGAAGCGAGGAGTTTTCCTGGAAGCATTTCGACAAACTAAGTTGGTATGGTCATTGGATGTACACAGAATGTCTGTTGGTGCTGCATTGACATTCCTCTCAATCTGGCTTATTGATATACGAAGATTGGTTCTTGATGGAGAAGATATTCCTCAACTTGCCAGCATAGTCACTGTACAAGGTGAATTGGGACAGAAAAATGATGCTAGAGGGTTTCCCATTCCAAAGGCAGTGCATTCATTTCTCAAGGACCTAGCAGCACCCTTTAGCTATGCTGCATGGAACAATGGCCGCATTATATGCAATCAGGTTCAATTAAAGCGATGGCTTTCAAAGTCCTATTTGGATCAAGCTATTGCTCTTGAAAATTCCTTGCTTCCAATTCCCGGTGCGATGATAGGCAGCACATATGTAGAGGAAAAAGAGTTTGGCAATGAAGAAATTAACTCCAAAGAGAAGGAAATCACAAGAACAGAGTTAACATCAGTGTAA___AAGTTGTCCTCTTTGAAAATTGCATTCTGAAATTGCTTTGAATACTAAAGATCCAAAATATGAATCGAGGTCCCAATTCTGAAGCTAAGTGATGCCTGTAGTTGATTACAATATTGGTTCCTGTCATACGGATGTTCATGTTTGAGGGACCACAGAGGATGCGGGCCTAAAAATCTCAAGGTTGCAAAGCGGAAAAACCTTTTGGGATTGCAAAACAAGGAAAGAAATTGTTAGTAACATGAACCTGTTATCCCAGTCCATTCCATTATCAAAAGTCCAGATCGGATCAGTACTCTTCTCAGTAACCTTCCCTAGTTTTGTATATTGCTCACTATAAGCATCTTGGAATTCAATGATATGATATAGGACTTGAAGTCTTTACAGAGATCTGTTACTTTTGTTCAGTTCGGTTTGGGTATTGCATTATTAATATTTTGTCAGTAGTGAATTTAATTGGGAATTTTTGTTTATTAACTTCCTCGTTGATACAATGTTACCATATGGATCATAAACCAAACAAAGCTAAAATAGGGTTTGGGAGCCTTTTTTACATCCACACTCGTTTAGAAGCTTAGCAGCAGGTATTTCAGGGATTGTTCCACTTGTTGAAACTCGAAGTACTTTTTTGAGATACCTAATGAACTGGACAATTTATTAGTTTCAGTGCAATCAAACATTTTTTTGAAAGTCAATGTTGATAAGACATGGACCTTTTGTCATTACAAGATATCTGAGTACTTGAGTGGCCTGCCATGGATCAAAGGCTGTGTCCTCAACTTAGTTTAGTTGGAAGGGATGATAGTGAAAAACAAGGCCACTTGTTATTACTTTTGTGCTGTGAAGTTTAATTCAGAACAGCTGGATATGATCTGCGGCTCATCTTGAT

Fln Alignment:

Contig224___KATLYEDAVVAFNTMKEVGSEPNRDTYNSLIHMYSRGGLFLESHGIFWLMHEAGVEKNVETFNGLIEAYGRAGDFVEALKIFRDMKLAKCPPNEQTHEAVLNVYCIAGRIDEGSAYFLEIKEQGLVPSITAYCLMLSMYARSSSWEDAYELLEEM
A9NXP3_____________KARELQNAVQIFNSLQKSGLSVDEKTYSNMISCYGKAGFFQDAAKLFSRMQQEGIKPGKVTYNTMLDAYARSGLHTRAEEVFNDMQDEGYSPDSYTYLSLICAYTNCQRFQEAEDLLKRMHRQGLAPGLVHFNHLVFAFGKAGLVEDATRLYMEI

SNPs (tot: 9)

Position	A %	C %	G %	T %	Probability
1715	12		87		0.992554
1739		12		87	0.992554
1777	12	87			0.992554
1780			12	87	0.992554
1828		87		12	0.992554
1830	85		14		0.993533
1940	75	25			0.996473
1942			75	25	0.996473
1943		75		25	0.996473

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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