SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene218

Length: 2059 nt

UniGene Fasta

>sp_v3.0_unigene218
TGCTTAAGCAGTGGTATCAACGCAGAGTACGCGGGGCAGATACAGAACCGATAACTCCATGTATAGTCAGTGAATTGTGAGCAGAAAAAATTTCTTGATAGGTCTCTGAAGTGTTGATTTCAATATGTTGCTCCGTACTTCTTCTACTCCTGCGTTGAATTCCCTTATTATGATTCAACCTGAATCAGAATTGAGTGCGCGCAGATCTGTTCATTTGACCCAATTAGCTGTTGCCGATGTGAAGTGGGTTCATCATGATGCACAGCCCAGATTCGTAAGGACGCTGTCTGAAGCTGATTTGCATGAGCCATTGCCTAATGCCTGTTCAACCAGGGAGAGGGTAAGGAGGGGTTCTGGTTCTTTGGACCTCAGTGAAAGTCCCTCTACAGAAATTTTTCTGAGCAATGGCTTATTGGACGAGTCTCTGGAAGAGGATTTTGAGGATTTTGATAGCCCAATTTCAATTGGGTTTCAGAGCCCTGGAGAATCTCCGGAAAAAATCATGGCAGCCAGTAGAGGCGAGGGGCCTTTTGTCTCTGGAAGGAGGATTGAGAACTGGACCGGTGATAGGATATATAGCGGTACTGGATTGGCTTTGGTGTGCGACAGGGCTGTTGTTGGATCTAAGATTGAGACGGGTTCTGGTAATGGAGGATTTGGCGGTGAAAATGGAGGTGGGTCGTCTGGTGGAGGAGGGTATGGAGGGAGAGGAGGTGGATTTGGATCAGATTCCAATAACACAGATGCTTACTATAAGAAAATGCTGCAGGCAGATCCTGTTAACCCACTTCTGTTGACGAATTATGCGAGGTTCCTGCAGGAGGTGCAGCATGATTTGGGAAAAGCTGAGGAATACTATGGGAGGGCCATACTAGCAAGTCCGGGAGATGGAGATATCCTCTCTCTTTATGCCAATCTGATATGGGATGCTCACAAAGATGCATCTCGGGCCAAAACCTACTTTGATCAGGCTGTTCAGGCTACACCAGATGACAGCAATGTGCTTGGATCATATGCCCATTTCATATGGAATGCAGACATCGATGAAGCGGATCAGGATGCTTCTCAACAGCAGAAAATTGCCCCCATAACCTATCATGGAAGTGCGACTACTGCAGCTAGCTGATCACATCAGGGGTCCTAATTACAATTTTGCTTCAATGAACAAAACCATCATACTTGTCATGCTACTCAGATTTTGCCAATATCAAAACCATCATACTTGTCATGCTACTCTGATTTTGCCAATATCAGTGCTGCCAATCAAATTATTGGCAGTACTAAGTCATCTCTCTGTACATAAATCGGATGCCTAAATGATCTTAGCATGCATCATTTGAACAAAATATTGCAGCTTGAAGACTCTTGTATGTGATAAGTCTCAGCCCTCTTCAAAGCTGTAAAGTGTGTTTTCTGATTATTTCTTTGGTACTAGTGGTAATAATGCTTCTGAGCTTCTGAGGACAAGGGCAGTCTTTTGATAGACTACAAGATGGGCAAATGAATGGAACAAAAATGATGGGAATCGAATAAAATCAAGTCTTCAACTGAAGAAGAATGGGAAGAATGGGGTTCGGGGTTCATCTGAGGATGGGAATGCTCTTTTTGATGGCAGGTCACATCCCATTGAAAGGGATCCTGGATGCAAATTCGATGGCATGGAAAGCGTCATATGCGAGTCTGAAAAAGCACTTAAAAACTTCATGATCAACTGGTGCATACCTTCCGAGCTACGTGCCTAATAAGCATGAAGTTATATTGAGCTTTGCTTACTTGATATAAAAAGCCGTCAAATGTCATGTAACAACTCTAGGAACTAAATTTGGAATTGTGTTCAAGTATGGCGAGTGAAAAGAGCCTTTGATGTGTGTAAGAAATTCAACAGGAGGGCATTTTGGAAGTTGACTGAATAATTTCAACAATATTGTGCAAATTACTCACTGCTTTGTATTTATGGAATGTACCAGAGCAATTTTGGCAATAAAATACTGTTTGAGGTGCAAACTATTTAGAACAATCAAAACATAATTGGAATAATTAAGCAGCAATTCGGATTTAA

Ace file of the UniGene sp_v3.0_unigene218

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	FAP domain containing protein	-	-	0.0001	34%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	58%

Source	Gene names
Sma3	AT4g17940; AT4g32340; At1g04530; At4g17940; At4g32340; F10M6.30; F8B4.40; GSVIVT00015736001; GSVIVT00020351001; H0306B06.7; LOC_Os10g42610; OSIGBa0092E01.3; OSJNBa0027L23.7; OSJNBa0067K08.11; Os10g0576600; OsI_23644; OsI_34773; OsJ_15329; OsJ_21918; OsJ_3

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	binding	GO:0005488	Molecular Function	-
Sma3	RNA processing	GO:0006396	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	RNA-processing protein, HAT helix	IPR003107	-	-
Sma3	Tetratricopeptide TPR-3	IPR011716	-	-
Sma3	Tetratricopeptide-like helical	IPR011990	-	-
Sma3	Tetratricopeptide repeat-containing domain	IPR013026	-	-
Sma3	Tetratricopeptide TPR2	IPR013105	-	-
Sma3	DNA ligase, ATP-dependent, conserved site	IPR016059	-	-
Sma3	Tetratricopeptide repeat	IPR019734	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT4G17940.1	Tetratricopeptide repeat (TPR)-like superfamily protein chr4:9965787-9966778 FORWARD LENGTH=274	6.0e-34	53%
RefSeq	Arabidopsis thaliana	NP_567545.1	tetratricopeptide repeat domain-containing protein [Arabidopsis thaliana]	8.0e-34	53%
RefSeq	Populus trichocarpa	XP_002308981.1	predicted protein [Populus trichocarpa]	5.0e-40	57%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: A9NPS5

Fln msg:

Fln protein: MLLRTSSTPALNSLIMIQPESELSARRSVHLTQLAVADVKWVHHDAQPRFVRTLSEADLHEPLPNACSTRERVRRGSGSLDLSESPSTEIFLSNGLLDESLEEDFEDFDSPISIGFQSPGESPEKIMAASRGEGPFVSGRRIENWTGDRIYSGTGLALVCDRAVVGSKIETGSGNGGFGGENGGGSSGGGGYGGRGGGFGSDSNNTDAYYKKMLQADPVNPLLLTNYARFLQEVQHDLGKAEEYYGRAILASPGDGDILSLYANLIWDAHKDASRAKTYFDQAVQATPDDSNVLGSYAHFIWNADIDEADQDASQQQKIAPITYHGSATTAAS*

Protein Length: 335

Fln nts: TGCTTAAGCAGTGGTATCAACGCAGAGTACGCGGGGCAGATACAGAACCGATAACTCCATGTATAGTCAGTGAATTGTGAGCAGAAAAAATTTCTTGATAGGTCTCTGAAGTGTTGATTTCAAT_-_ATGTTGCTCCGTACTTCTTCTACTCCTGCGTTGAATTCCCTTATTATGATTCAACCTGAATCAGAATTGAGTGCGCGCAGATCTGTTCATTTGACCCAATTAGCTGTTGCCGATGTGAAGTGGGTTCATCATGATGCACAGCCCAGATTCGTAAGGACGCTGTCTGAAGCTGATTTGCATGAGCCATTGCCTAATGCCTGTTCAACCAGGGAGAGGGTAAGGAGGGGTTCTGGTTCTTTGGACCTCAGTGAAAGTCCCTCTACAGAAATTTTTCTGAGCAATGGCTTATTGGACGAGTCTCTGGAAGAGGATTTTGAGGATTTTGATAGCCCAATTTCAATTGGGTTTCAGAGCCCTGGAGAATCTCCGGAAAAAATCATGGCAGCCAGTAGAGGCGAGGGGCCTTTTGTCTCTGGAAGGAGGATTGAGAACTGGACCGGTGATAGGATATATAGCGGTACTGGATTGGCTTTGGTGTGCGACAGGGCTGTTGTTGGATCTAAGATTGAGACGGGTTCTGGTAATGGAGGATTTGGCGGTGAAAATGGAGGTGGGTCGTCTGGTGGAGGAGGGTATGGAGGGAGAGGAGGTGGATTTGGATCAGATTCCAATAACACAGATGCTTACTATAAGAAAATGCTGCAGGCAGATCCTGTTAACCCACTTCTGTTGACGAATTATGCGAGGTTCCTGCAGGAGGTGCAGCATGATTTGGGAAAAGCTGAGGAATACTATGGGAGGGCCATACTAGCAAGTCCGGGAGATGGAGATATCCTCTCTCTTTATGCCAATCTGATATGGGATGCTCACAAAGATGCATCTCGGGCCAAAACCTACTTTGATCAGGCTGTTCAGGCTACACCAGATGACAGCAATGTGCTTGGATCATATGCCCATTTCATATGGAATGCAGACATCGATGAAGCGGATCAGGATGCTTCTCAACAGCAGAAAATTGCCCCCATAACCTATCATGGAAGTGCGACTACTGCAGCTAGCTGA___TCACATCAGGGGTCCTAATTACAATTTTGCTTCAATGAACAAAACCATCATACTTGTCATGCTACTCAGATTTTGCCAATATCAAAACCATCATACTTGTCATGCTACTCTGATTTTGCCAATATCAGTGCTGCCAATCAAATTATTGGCAGTACTAAGTCATCTCTCTGTACATAAATCGGATGCCTAAATGATCTTAGCATGCATCATTTGAACAAAATATTGCAGCTTGAAGACTCTTGTATGTGATAAGTCTCAGCCCTCTTCAAAGCTGTAAAGTGTGTTTTCTGATTATTTCTTTGGTACTAGTGGTAATAATGCTTCTGAGCTTCTGAGGACAAGGGCAGTCTTTTGATAGACTACAAGATGGGCAAATGAATGGAACAAAAATGATGGGAATCGAATAAAATCAAGTCTTCAACTGAAGAAGAATGGGAAGAATGGGGTTCGGGGTTCATCTGAGGATGGGAATGCTCTTTTTGATGGCAGGTCACATCCCATTGAAAGGGATCCTGGATGCAAATTCGATGGCATGGAAAGCGTCATATGCGAGTCTGAAAAAGCACTTAAAAACTTCATGATCAACTGGTGCATACCTTCCGAGCTACGTGCCTAATAAGCATGAAGTTATATTGAGCTTTGCTTACTTGATATAAAAAGCCGTCAAATGTCATGTAACAACTCTAGGAACTAAATTTGGAATTGTGTTCAAGTATGGCGAGTGAAAAGAGCCTTTGATGTGTGTAAGAAATTCAACAGGAGGGCATTTTGGAAGTTGACTGAATAATTTCAACAATATTGTGCAAATTACTCACTGCTTTGTATTTATGGAATGTACCAGAGCAATTTTGGCAATAAAATACTGTTTGAGGTGCAAACTATTTAGAACAATCAAAACATAATTGGAATAATTAAGCAGCAATTCGGATTTAA

Fln Alignment:

Contig218___TDAYYKKMLQADPVNPLLLTNYARFLQEVQHDLGKAEEYYGRAILASPGDGDILSLYANLIWDAHKDASRAKTYFDQAVQATPDDSNVLGSYAHFIWNADIDEADQDAS--QQQKIAPITYHGSATTA
A9NPS5_____________TEVYFQKMLEANPGNSLLLRNYAKFLHEVQGNLAKAEEYYERAILASPGDGEVLALYAKLMWEVRRDAHHAEAYFDQAVQANPDDCFVLGSYAHFLWDSEEGEAGRADSEMQQSSAALVMSYNSATEA

SNPs (tot: 18)

Position	A %	C %	G %	T %	Probability
1357		12	87		0.992554
1358	12	87			0.992554
1391		71	28		1.0
1399	85			14	0.993533
1404	16			83	0.994512
1405	83			16	0.994512
1410		16	83		0.994512
1413		16		83	0.994512
1414	16			83	0.994512
1415			16	83	0.994512
1416		16		83	0.994512
1428		50		50	1.0
1530		60		40	1.0
1617	88			11	0.923564
1618		11	88		0.923564
1883		50		50	1.0
1890	37	62			1.0
2003		33	66		0.997452

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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