SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene9515

Length: 1945 nt

UniGene Fasta

>sp_v3.0_unigene9515
CGGCACACTCATCCCAATCGTTCATACTCAAAACTCCAAGAAGGTTTTAGTGACTAAACCCTTTTCCCCAAAGCGTACATTGAGCGTGTCCTTAAAGCCCAGCGGCAGTAGCAGGGTATGCCCATTTTTGCTCACTGCTTGCTACTGAGCACCATTTTTATTCGTCTCTGAAGCTTTACAACGCCTTGTTAACAAATGGCCTCAGCTGCGCACGAGGGCGAGAACGGCTTAGGACAGCATTCGGGAGGAGGAGGGCATTTCAGTTCCAGCCCCAACGCTCCGAGCGGCAACCCTTCAGTGGGCCAAAAGCGAGGTCGCGAGGTCGAGCTCGGGGACGCTCCGGCCGACAAGAAATGGCCCGGATGGCCCGGGGAGACGGTGTTCAGGCTGATTGTTCAGGTGCAAAAGGTGGGGAGTATCATTGGGCGGAAAGGAGAGCTCGTGAAGAAAATGTGTGAGGAGACCAGGGCGCGCATAAAGATTCTCGAGGGTGTTGCAGGGACGACGGATCGTGTGGTTTTGATAACTGCAAGAGAGGAACCAGATGCACCTATATCTCCTGCTATGGATGCTATACTAAGAGTGCACAAGCGTGTCGCAGGAATTCAGGATTCCGAAGGTGATGGTGCCAATCAACCATTAGCAGGCTCTGGAGTAATTACAACTAGACTCCTGGTTGCAGCATCACAAGCAGGAAGTCTAATTGGAAAACAAGGATCAACAATAAAATCGATTCAAGAAGCATCTGCTGCCACTGTGCGGGTGCTACCGGCAGATGAATTGTCACATTGTTCCTTGCCTGAAGATCGAATTGTAGAAATCCAGGGTGAAGCACCCAAGGTTCAGAAAGCACTGGAGATGGTTGCTGGTCACCTTCGCAAGTTTTTAGTTGATCGCAGCATTCTTCCATTGTTTGAACAGAACCCACATTCAGCGAATGATGCACAAGATTTGGCACCAACCTGGGGAAAGACAACAGTGCCAGCTCTTTCCACTACATCTCAGCCTGGACTGGGTGGTCTGGGAGCAGGCTTGACTTCAACATTCAAGCATGATTCATTTTATCCTCCTAGGGATACTCAGATTGAGTCACAGCCTCATCACCGCGGCTTGTCTATTTATGGAAAAGATCCAGGACCAGTGGGATTGAGATCTTCTCTACATGCACCTGCAGCTGCACCAGTCATCACTCAGGTGATACAAAAAATGCAGATACCCCTCTCATATGCAGATGATGTAATTGGCGTTGAGGGAACAAATATTGGGTACATGCGTCGTGTGAGTGGAGCTACAATCACTATTCAGGAAACTAGAGGTGTACCTAGTGAGATCACAGTAGAAATCAAGGGAACTAATACCCAAGTTCAAACAGCCCAACAACTTATTCAGAATTTCATGGCGGGAGGTCATAAGAAAGTTACACACAATGTCGATGCTGGTTATGGTTCTTATGCCCAAAATTCAAATTCTTTTTATCCTTCATCCACTGTGAGCAGTCACCCGGTTGGTGGATATGGATCCTCCTATGGTACAGGATATGGTTATTGATATCGCTGGATGTATATTTTCGCAATAATATGTTTTTGGCCGACTCCTGTTTCTATTGCAATTGACATAGTCTAGTTTCTAAATGCAATACTTAGGAGCAATCGCTGACCTTTTGTAGAGTAGTAAATGTTGCTTCTAAGATGTGTCAAATTAGTCAGGTAACTGGAAGAGGGGGCATGCCATGTAATGCTGTCTTGTAGTAATGGAAAACATTTGGCATTTTCAACAAAAATTAAGCTAGCTAACAAATGTAGTGACTGTGTTAATAGTTCAATATGTATTTTTAGGTGTTTACGTTTTTAGATGGCTTACAAAGTTTTAAATAAATTAGTTGTAATTTTTAATGCAAATCATGTACGTTTTTATTTCTCAGAAGAATCCACGTTATTTCCATTAT

Ace file of the UniGene sp_v3.0_unigene9515

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	KH_1 domain containing protein	-	-	5.0e-11	29%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	58%
Sma3	Poly(RC)-binding protein, putative	-	-	7.986e-11	-

Source	Gene names
Sma3	AT4g26000; At3g04610; At4g26000; F20B18.110; F7O18.9; FLK; GSVIVT00002157001; GSVIVT00006796001; GSVIVT00023873001; LOC_Os03g42900; LOC_Os10g27470; LOC_Os10g41440; LOC_Os12g40560; OSJNBa0027P10.5; OSJNBb0013K08.4; Os03g0627500; Os10g0414700; Os10g0564000;

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	DNA integration	GO:0015074	Biological Process	-
Sma3	shoot development	GO:0048367	Biological Process	-
Sma3	gynoecium development	GO:0048467	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	K Homology domain	IPR004087	-	-
Sma3	K Homology domain, type 1	IPR004088	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3		IPR018111	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT3G04610.1	FLK RNA-binding KH domain-containing protein chr3:1250762-1254272 REVERSE LENGTH=577	48%
RefSeq	Arabidopsis thaliana	NP_187112.1	RNA-binding KH domain-containing protein [Arabidopsis thaliana]	48%
RefSeq	Populus trichocarpa	XP_002332094.1	predicted protein [Populus trichocarpa]	54%

Full-Lengther Next Prediction

Fln status: Putative Complete

Fln database: coniferopsida.fasta

Fln subject: A9NUV7

Fln msg: Unexpected STOP codon in 5 prime region, your sequence is shorter than subject: 451 - 481

Fln protein: MASAAHEGENGLGQHSGGGGHFSSSPNAPSGNPSVGQKRGREVELGDAPADKKWPGWPGETVFRLIVQVQKVGSIIGRKGELVKKMCEETRARIKILEGVAGTTDRVVLITAREEPDAPISPAMDAILRVHKRVAGIQDSEGDGANQPLAGSGVITTRLLVAASQAGSLIGKQGSTIKSIQEASAATVRVLPADELSHCSLPEDRIVEIQGEAPKVQKALEMVAGHLRKFLVDRSILPLFEQNPHSANDAQDLAPTWGKTTVPALSTTSQPGLGGLGAGLTSTFKHDSFYPPRDTQIESQPHHRGLSIYGKDPGPVGLRSSLHAPAAAPVITQVIQKMQIPLSYADDVIGVEGTNIGYMRRVSGATITIQETRGVPSEITVEIKGTNTQVQTAQQLIQNFMAGGHKKVTHNVDAGYGSYAQNSNSFYPSSTVSSHPVGGYGSSYGTGYGY*

Protein Length: 452

Fln nts: CGGCACACTCATCCCAATCGTTCATACTCAAAACTCCAAGAAGGTTTTAGTGACTAAACCCTTTTCCCCAAAGCGTACATTGAGCGTGTCCTTAAAGCCCAGCGGCAGTAGCAGGGTATGCCCATTTTTGCTCACTGCTTGCTACTGAGCACCATTTTTATTCGTCTCTGAAGCTTTACAACGCCTTGTTAACAA_-_ATGGCCTCAGCTGCGCACGAGGGCGAGAACGGCTTAGGACAGCATTCGGGAGGAGGAGGGCATTTCAGTTCCAGCCCCAACGCTCCGAGCGGCAACCCTTCAGTGGGCCAAAAGCGAGGTCGCGAGGTCGAGCTCGGGGACGCTCCGGCCGACAAGAAATGGCCCGGATGGCCCGGGGAGACGGTGTTCAGGCTGATTGTTCAGGTGCAAAAGGTGGGGAGTATCATTGGGCGGAAAGGAGAGCTCGTGAAGAAAATGTGTGAGGAGACCAGGGCGCGCATAAAGATTCTCGAGGGTGTTGCAGGGACGACGGATCGTGTGGTTTTGATAACTGCAAGAGAGGAACCAGATGCACCTATATCTCCTGCTATGGATGCTATACTAAGAGTGCACAAGCGTGTCGCAGGAATTCAGGATTCCGAAGGTGATGGTGCCAATCAACCATTAGCAGGCTCTGGAGTAATTACAACTAGACTCCTGGTTGCAGCATCACAAGCAGGAAGTCTAATTGGAAAACAAGGATCAACAATAAAATCGATTCAAGAAGCATCTGCTGCCACTGTGCGGGTGCTACCGGCAGATGAATTGTCACATTGTTCCTTGCCTGAAGATCGAATTGTAGAAATCCAGGGTGAAGCACCCAAGGTTCAGAAAGCACTGGAGATGGTTGCTGGTCACCTTCGCAAGTTTTTAGTTGATCGCAGCATTCTTCCATTGTTTGAACAGAACCCACATTCAGCGAATGATGCACAAGATTTGGCACCAACCTGGGGAAAGACAACAGTGCCAGCTCTTTCCACTACATCTCAGCCTGGACTGGGTGGTCTGGGAGCAGGCTTGACTTCAACATTCAAGCATGATTCATTTTATCCTCCTAGGGATACTCAGATTGAGTCACAGCCTCATCACCGCGGCTTGTCTATTTATGGAAAAGATCCAGGACCAGTGGGATTGAGATCTTCTCTACATGCACCTGCAGCTGCACCAGTCATCACTCAGGTGATACAAAAAATGCAGATACCCCTCTCATATGCAGATGATGTAATTGGCGTTGAGGGAACAAATATTGGGTACATGCGTCGTGTGAGTGGAGCTACAATCACTATTCAGGAAACTAGAGGTGTACCTAGTGAGATCACAGTAGAAATCAAGGGAACTAATACCCAAGTTCAAACAGCCCAACAACTTATTCAGAATTTCATGGCGGGAGGTCATAAGAAAGTTACACACAATGTCGATGCTGGTTATGGTTCTTATGCCCAAAATTCAAATTCTTTTTATCCTTCATCCACTGTGAGCAGTCACCCGGTTGGTGGATATGGATCCTCCTATGGTACAGGATATGGTTATTGATATCGCTGGATGTATATTTTCGCAATAATATGTTTTTGGCCGACTCCTGTTTCTATTGCAATTGACATAGTCTAGTTTCTAAATGCAATACTTAGGAGCAATCGCTGACCTTTTGTAGAGTAGTAAATGTTGCTTCTAAGATGTGTCAAATTAGTCAGGTAACTGGAAGAGGGGGCATGCCATGTAATGCTGTCTTGTAGTAATGGAAAACATTTGGCATTTTCAACAAAAATTAAGCTAGCTAACAAATGTAGTGACTGTGTTAATAGTTCAATATGTATTTTTAGGTGTTTACGTTTTTAGATGGCTTACAAAGTTTTAAATAAATTAGTTGTAATTTTTAATGCAAATCATGTACGTTTTTATTTCTCAGAAGAATCCACGTTATTTCCATTAT

Fln Alignment:

Contig9515___VGQKRGREVELGDAPADKKWPGWPGETVFRLIVQVQKVGSIIGRKGELVKKMCEETRARIKILEGVAGTTDRVVLITAREEPDAPISPAMDAILRVHKR-VAGIQDSEGDGANQPLAGSGVITTRLLVAASQAGSLIGKQGSTIKSIQEASAATVRVLPADELSHCSLPEDRIVEIQGEAPKVQKALEMVAGHLRKFLVDRSILPLFEQNPHSANDAQ--DLAP--TWGKTTVPALSTTSQPXXXXXXXXXTSTFKHDSFYPPRDTQIESQPHHRGLSIYGKDPGPVGLRSSLHAPAAAPVITQVIQKMQIPLSYADDVIGVEGTNIGYMRRVSGATITIQETRGVPSEITVEIKGTNTQVQTAQQLIQNFMAGGH---KKVTHNVDAGYGSYAQNSNSFYPS
A9NUV7______________LSQKRGRDDEIGAGLTDKKWPGWPGDNVFRLLVPTQMVGGIIGRKGEFVKKMCEETRSRIKILEGLRGTPERTVMVSAKEEPEAPVSPAMDGILRVHKRIIEGGPDGRGELGRAQQGGSGTISTRLLVAGTQAGSLIGRQGATIKAIQEGSGAIVRVLAAEDLPFCALADDRLVEVQGEAGSVHKAVELIVSHLRKFLVDRSVLPLFEADRTIGNQPQIEENLPHQSWGHNQSSSV-PSSGGAGLGNTQYMSSAFQHDNYYPPSDLPLESQGHH-GLSVYGRDPSLAG--HSVANPPPAPVITQVTQHMQIPLSYADAIIGTAGANISYMRRNSGATIAVQETRGVPGEMTVEIRGTATQVQTAQQLIQNFMAGASGPPANTYSSVDSGYNSY-PTQNSMYSS

SNPs (tot: 24)

Position	A %	C %	G %	T %	Probability
80			40	60	1.0
127		16		83	0.994512
178	87			12	0.992554
184		87		12	0.992554
573	85			14	0.993533
601	14		85		0.993533
656		16		83	0.994512
657	83		16		0.994512
661	83		16		0.994512
662		83	16		0.994512
663	83		16		0.994512
664	83		16		0.994512
667	83		16		0.994512
910		11		88	0.923564
911	12			87	0.992554
912			87	12	0.992554
1025			11	88	0.923564
1119	10			90	0.90298
1121	90		10		0.90298
1122			10	90	0.90298
1662		1		95	0.918242
1744		4		95	0.997218
1851		11	88		0.923564
1879			83	16	0.994512

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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