SustainPineDB

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene30363

Length: 1960 nt

Origin of reads: Biogeco1 v2 Biogeco2 v2 Biogeco3 v1 Uagpf v2 Uma v2

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

UniGene Fasta (sense)

>sp_v2.0_unigene30363
CGTCGTGACCTTGGCTGTCACTCATATTAGTTCCACTTCGCCCTTTGCTATGGGACAGCGAGGGTTTGATGACGACGAAGAAGAAGCTTCTCTGAAGGGCAAGGTGCGGTGGGGACTAGATTCGATAGCGGCTCTGGGTTTAAAGTTCTGAATTAAACGGGCTTTGGTTAAAAAGTTAAAAAAGGTTGGAATTTGAGCAGGAGGAGCTGATAGAGTGTTATTATCGGAACGGATGAAATAATTGAAGCCAAAGGGGCTTATGTGTGTGTTTTGCGGCCTTCTGCGAGTAAGGGGAAATGGAATTATTGGAGTGAAGTAGGTGTTCTTGGAGAAATATGCGGGGAGCTCATAATAACAGCAATAATAGTGAGAAATCTTGCGTGTTGAGATCCCTCTGAGCTTCGCTTTTCAGAATGAGGACCGGCTTCTCCCAGCAGCATCGGGAAGGGGAAAAGAGGAGTCTCAATTCGGAGCTATGGCATGCATGTGCTGGGCCACTTGTGTCACTACCTGCTGTTGGGAGCCGTGTTGTATATTTTCCTCAAGGTCACAGTGAGCAGGTGGCTGCCTCAACAAACAAGGAGGTTGATGCTCACATTCCTAACTATCCAAATCTTCCACCACAATTAATCTGCCAGCTACACAATGTTACTCTGCAGGCAGATGTGGAGACAGATGAAGTATATGCTCAAATGACATTACAGCCCTTAAACACGCAAGAGCAAAAGGAGTCTTATCTAGCTCCTGATATTGGCACGCAAAGCAGACAGCCAACTAATTACTTCTGTAAAACGCTAACAGCAAGTGACACCAGCACTCATGGTGGATTCTCAATTCCACGCCGTGCTGCTGAGAAAGTGTTTCCACCACTGGATTTCACTCAGCAGCCTCCTGTTCAAGAGCTTGTTGCTAGGGATCTTCATGACAATGAGTGGAAATTTCGGCATATTTATAGGGGTCAGCCCAAGCGGCATCTGCTGACAACAGGATGGAGTGTATTTGTTAGTGCAAAGAGACTCAGTGCTGGTGATGCTGTGCTTTTTATTAGGAATGAGAAAGGACAGTTATTGCTGGGAATCAGGCGAGCAAACCGATCCCAAACAGTTATGCCATCATCAGTGCTGTCCAGTGATAGCATGCACATAGGTGTTCTTGCGGCTGCAGCTCATGCTGCTTCAACAAACTGCCGCTTCACTATTTTCTACAATCCAAGGGCAAGTCCATCAGAATTTGTCATACCATTGTCTAAGTATGAAAAGGCAGTTTATCACACACGAGTTTCAATTGGAATGCGCTTCCGGATGCTGTTTGAGACAGAAGAATCAACTGTACGAAGGTACATGGGTACAATTACTGGCATAGGTGACTTGGATCCTGCTCGCTGGCCAAATTCACAATGGCGTTCAATTAAGGTTGGTTGGGATGAATCAACGGCAGGTGAGAGGCAGCCACGAGTATCTTTGTGGGAGATTGAACCTTTGACCACATTTCTGATGTACCCCCCACCCTATCCTCTAGGACTAAAACGATCATGGCCGCAACTACAGGGAATAACTTCTCTTTATGGCAGTGATGATGGCAGTTTCAGGAGGCCATTCATGTCAGAGAGGGGGGATAATGGGGAGCAAGGCCTTCAGACCTTGAATTTTCAAACAATAAGTATGGATCCATGGATGCAGATGCAGCAAAGATTTGAACCTTCTTTATCGGGGATCCAGTCCACTGCATACCATGGAATGCCTACAACTGTCTTGCAGCAGACAGGGAATCTTAATCAATCAAAACAGCTGAAGTTTCAGCAGCAGCAGCCTGTACAGTCTGAACAACTTCAGTGCAGACCGCAGGTACAATTACAGAGGAATGTTATTGAGCAACAACAACAGCATCAGCTTCAGCAGCAAGTTGTTAACTTAGAGCAACATCAACCACAAAATCATCTTTTGCAACAGCAATTACAGCA

Ace file of the UniGene sp_v2.0_unigene30363 (antisense)

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	Putative auxin response factor 6/8 n=1 Tax=Ginkgo biloba RepID=E1UHX7_GINBI	-	-	80%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	55%
Blast2go	auxin response factor 6-like	-	-	85%

Source	GOs	Term	Type	e value	Identity
Blast2go	flower development	GO:0009908	Biological Process	0.0	85%
Blast2go	response to auxin stimulus	GO:0009733	Biological Process	0.0	85%

Source	InterPros	Term	Type	Identity
Sma3	Aminotransferase, class-II, pyridoxal-phosphate binding site	IPR001917	-	-
Sma3	Smr protein/MutS2 C-terminal	IPR002625	-	-
Sma3	AUX/IAA protein	IPR003311	-	-
Sma3	B3 DNA binding domain	IPR003340	-	-
Sma3	Ribosomal protein S12/S23	IPR006032	-	-
Sma3	Protein of unknown function DUF482	IPR007434	-	-
Sma3	Auxin response factor	IPR010525	-	-
Sma3	Aux/IAA-ARF-dimerisation	IPR011525	-	-
Sma3	Domain of unknown function DUF1771	IPR013899	-	-
Sma3	DNA methylase, N-4 cytosine-specific, conserved site	IPR017985	-	-

Full-Lengther Next Prediction

Fln status: Putative N-terminus

Fln database: coniferopsida.fasta

Fln subject: B8LRW7

Fln msg: Distance to subject end: 351 aas, Unexpected STOP codon in 5 prime region, your sequence is shorter than subject: 515 - 920

Fln protein: MRTGFSQQHREGEKRSLNSELWHACAGPLVSLPAVGSRVVYFPQGHSEQVAASTNKEVDAHIPNYPNLPPQLICQLHNVTLQADVETDEVYAQMTLQPLNTQEQKESYLAPDIGTQSRQPTNYFCKTLTASDTSTHGGFSIPRRAAEKVFPPLDFTQQPPVQELVARDLHDNEWKFRHIYRGQPKRHLLTTGWSVFVSAKRLSAGDAVLFIRNEKGQLLLGIRRANRSQTVMPSSVLSSDSMHIGVLAAAAHAASTNCRFTIFYNPRASPSEFVIPLSKYEKAVYHTRVSIGMRFRMLFETEESTVRRYMGTITGIGDLDPARWPNSQWRSIKVGWDESTAGERQPRVSLWEIEPLTTFLMYPPPYPLGLKRSWPQLQGITSLYGSDDGSFRRPFMSERGDNGEQGLQTLNFQTISMDPWMQMQQRFEPSLSGIQSTAYHGMPTTVLQQTGNLNQSKQLKFQQQQPVQSEQLQCRPQVQLQRNVIEQQQQHQLQQQVVNLEQHQPQNHLLQQQLQ

Protein Length: 516

Fln nts: CGTCGTGACCTTGGCTGTCACTCATATTAGTTCCACTTCGCCCTTTGCTATGGGACAGCGAGGGTTTGATGACGACGAAGAAGAAGCTTCTCTGAAGGGCAAGGTGCGGTGGGGACTAGATTCGATAGCGGCTCTGGGTTTAAAGTTCTGAATTAAACGGGCTTTGGTTAAAAAGTTAAAAAAGGTTGGAATTTGAGCAGGAGGAGCTGATAGAGTGTTATTATCGGAACGGATGAAATAATTGAAGCCAAAGGGGCTTATGTGTGTGTTTTGCGGCCTTCTGCGAGTAAGGGGAAATGGAATTATTGGAGTGAAGTAGGTGTTCTTGGAGAAATATGCGGGGAGCTCATAATAACAGCAATAATAGTGAGAAATCTTGCGTGTTGAGATCCCTCTGAGCTTCGCTTTTCAGA_-_ATGAGGACCGGCTTCTCCCAGCAGCATCGGGAAGGGGAAAAGAGGAGTCTCAATTCGGAGCTATGGCATGCATGTGCTGGGCCACTTGTGTCACTACCTGCTGTTGGGAGCCGTGTTGTATATTTTCCTCAAGGTCACAGTGAGCAGGTGGCTGCCTCAACAAACAAGGAGGTTGATGCTCACATTCCTAACTATCCAAATCTTCCACCACAATTAATCTGCCAGCTACACAATGTTACTCTGCAGGCAGATGTGGAGACAGATGAAGTATATGCTCAAATGACATTACAGCCCTTAAACACGCAAGAGCAAAAGGAGTCTTATCTAGCTCCTGATATTGGCACGCAAAGCAGACAGCCAACTAATTACTTCTGTAAAACGCTAACAGCAAGTGACACCAGCACTCATGGTGGATTCTCAATTCCACGCCGTGCTGCTGAGAAAGTGTTTCCACCACTGGATTTCACTCAGCAGCCTCCTGTTCAAGAGCTTGTTGCTAGGGATCTTCATGACAATGAGTGGAAATTTCGGCATATTTATAGGGGTCAGCCCAAGCGGCATCTGCTGACAACAGGATGGAGTGTATTTGTTAGTGCAAAGAGACTCAGTGCTGGTGATGCTGTGCTTTTTATTAGGAATGAGAAAGGACAGTTATTGCTGGGAATCAGGCGAGCAAACCGATCCCAAACAGTTATGCCATCATCAGTGCTGTCCAGTGATAGCATGCACATAGGTGTTCTTGCGGCTGCAGCTCATGCTGCTTCAACAAACTGCCGCTTCACTATTTTCTACAATCCAAGGGCAAGTCCATCAGAATTTGTCATACCATTGTCTAAGTATGAAAAGGCAGTTTATCACACACGAGTTTCAATTGGAATGCGCTTCCGGATGCTGTTTGAGACAGAAGAATCAACTGTACGAAGGTACATGGGTACAATTACTGGCATAGGTGACTTGGATCCTGCTCGCTGGCCAAATTCACAATGGCGTTCAATTAAGGTTGGTTGGGATGAATCAACGGCAGGTGAGAGGCAGCCACGAGTATCTTTGTGGGAGATTGAACCTTTGACCACATTTCTGATGTACCCCCCACCCTATCCTCTAGGACTAAAACGATCATGGCCGCAACTACAGGGAATAACTTCTCTTTATGGCAGTGATGATGGCAGTTTCAGGAGGCCATTCATGTCAGAGAGGGGGGATAATGGGGAGCAAGGCCTTCAGACCTTGAATTTTCAAACAATAAGTATGGATCCATGGATGCAGATGCAGCAAAGATTTGAACCTTCTTTATCGGGGATCCAGTCCACTGCATACCATGGAATGCCTACAACTGTCTTGCAGCAGACAGGGAATCTTAATCAATCAAAACAGCTGAAGTTTCAGCAGCAGCAGCCTGTACAGTCTGAACAACTTCAGTGCAGACCGCAGGTACAATTACAGAGGAATGTTATTGAGCAACAACAACAGCATCAGCTTCAGCAGCAAGTTGTTAACTTAGAGCAACATCAACCACAAAATCATCTTTTGCAACAGCAATTACAGCA

Fln Alignment:

AllPineV4_c12263___EGEKR-------SLNSELWHACAGPLVSLPAVGSRVVYFPQGHSEQVA------------------------------------ASTNKEVDAHIPNYPNLPPQLICQLHNVTLQADVETDEVYAQMTLQPLNTQEQKESYLAPDIGTQSRQPTNYFCKTLTASDTSTHGGFSIPRRAAEKVFPPLDFTQQPPVQELVARDLHDNEWKFRHIYRGQPKRHLLTTGWSVFVSAKRLSAGDAVLFIRNEKGQLLLGIRRANRSQTVMPSSVLSSDSMHIGVLXXXXXXASTNCRFTIFYNPRASPSEFVIPLSKYEKAVYHTRVSIGMRFRMLFETEESTVRRYMGTITGIGDLDPARWPNSQWRSIKVGWDESTAGERQPRVSLWEIEPLTT---FLMYPPPYPLGLKRSWP
B8LRW7_______________DGDKRIVVETGNSVCPELWHACAGPLISLPPKGSRVVYFPQGHLEQIADNELHKVGRGSFLNINQAVTPMAEEASSAASLNIPPSSISQAVNQQMLSY-KLPPQILCRVLNVNLHADQEMDEVYAQLTLVP--DSEKSEKCIEEQLPVPPSSTPHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGREWRFRHIFRGQPRRHLLTTGWSVFVSYKRLVAGDAVLFLRDENGELRLGIRRASQQQSSVPSSVLSSHGIHSGVLAAVAHAVATKSMFHIFYNPRTSPTEFVIPYHKYVKSFNHS-FSIGMRFKMRFETEDATERRYTGTIVGIGDVDPMRWPNSEWRSFKVGWDEHAAQERQERVSPWEIEPFTSATGLNALPGPRVKRLRTSFP

SNPs (tot: 35)

Position	A %	C %	G %	T %	Probability
1263	25	75			0.99649
1265		25		75	0.99649
1473			37	50	1.0
1536	11	88			0.923564
1537	11	88			0.991528
1543		11		88	0.991528
1604	76	23			1.0
1663	87		12		0.999964
1664	12	87			0.999964
1665			12	87	0.999964
1667		87	12		0.999964
1671			12	87	0.999964
1676			12	87	0.999964
1677	87		12		0.999964
1678	87			12	0.999964
1679		12		87	0.999964
1680	12			87	0.999964
1682		87	12		0.999964
1684		16		83	0.999991
1685			18	81	0.999994
1693	88		11		0.923564
1742			12	87	0.992554
1745		12		87	0.992554
1746		12		87	0.992554
1747		12		87	0.992554
1936	37	25			1.0
1937	37	62			1.0
1940			37	62	1.0
1942	25		75		0.996475
1944	66	33			0.997456
1945	66	33			0.997456
1946	66	33			0.997456
1947		33	66		0.997454
1948	33		66		0.997476
1949			66	33	0.997476

SSRs (tot: 1)

Start position	End position	Sequence	Length
152	164	GCT GCT GCT GCT G	13

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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