SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene2888

Length: 2036 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene2888
GATACCACTGCTTAAGCAGTGGTATCAACGCAGAGTACGCGGGGGGAGTAGGGAGAATAGACATTGAGCCTGAGCAAGCAAGTAGAGCTTGAAGAGAGGCCGGGTCCATTTTCCGACCGAGAGTTGGAAACATGTGCCATACACAGAAAGACGGACCGAGCGGAAATTGGATTAGGCCCGAGAATCGTTTGAATAATCCCATGATGCAAAATACGAGAATTTCAGCAGAAAGCAGGCAATTTCTCGTAGTGGGCAGCAGTGGATTCATGCGGCCTGGAGTGGAAAGTGAGTCTGCAAACGAAGAAACCATGTTGATGAATGATAGTACCACGAATGCCTACACTGCTGTAACAACGCCTTGTGACCCAAAGAGCTGGACAATCCAAATGGGGTCCATGGAGAGCAGCTCTGGGCATCACAGTGCAAAGGTTTCAAGTGATAATAACAACATGGGGAACCTGGGGGATTCAAATGAAGAAGTTGAAAATTCTGTAGATGGGGTGCAATCTAGGCTTTGTGCCAGAGGCCATTGGAGGCCTGCTGAGGACGCCAAGCTTAAAGAATTGGTGTCACAGTATGGGCCTCAGAACTGGAACCTGATAGCAGAGAAGCTTGAAGGAAGATCAGGAAAGAGCTGCAGGCTTCGATGGTTTAATCAGTTGGACCCGAGAATCAACCGAAGGCCTTTCAGTGAAGAAGATGAGGAGAAGCTACTGGCAGCCCATCGTTTATATGGGAATAAATGGGCCATGATTGCCCGCTTATTTCCTGGGAGAACTGATAACGCTGTGAAGAACCATTGGCACGTTATCATGGCCAGGAGATACAGAGAGCAATCCAGTGCTTTTGGGAGAAGGAAATTGCCTCAAGTGCATAGAAGAGAGAAACGTGCCTGCACTGATGATGAAACGAGGATGGGCACCAGCTGCAACATGTGGGTGGATAAATATAGCTCTCTCAAATCTGCCCATGATGTAATTTTCAGAAGAGGATCTGTATGTAAGAGCCAGATTTTGGGAGATAACTCATCATGTGTTACAGCTTTTGGTGCTTCTAGGGTTGATAATGATGAACGGTGTGGAAATTTGGATAGATTGCAACAGAGAATCAGTGCAGCTTCCATTGCTCGTCACCAGCAGCAGCAGCAGCAGAAAGGTTACATGAGCAGCTTGGATGCAGTTCAATCCAGGATTTTCTTTGAAGGGTCCAGGGAGATGAAGATCAATAACAACTATAATAAGGCTGTGGATGTGTTAGGCAGCAATGTGGACAATTATCATATATTGGTCTCACAGATGGAAGGAGAATCATCTTCCCCCAGCCAGCTGACAACTGATTCCTGTGCTGCAGTGAGTTTATTGCAAGGTGCTTTTGCAAGTTCCAAGAGATCTTCAGTTGTCAATACAAATTTTAGTCTTGGTCATCAGCAGGAGGTTGTGCAGTATGGGTACTCAGATTCTAGTGCCTCCGATCAGTTATCCGCTGTGGAGGTTTCTTATGCTGATAACTCATCGACTACGGAAGCGGCGAATGAGTTCAAGAAACCTAATGCAGGTTTCATTGATTTTCTGGGAGTAGGGACAACATGAAGTAATTTATTACCATCTAGGGTTTATTTCATGGGGTCATTTATTATTCAAACTTGTTGTTTGACGACTGCATTGATGTTGTCTGAAGAGGCGTTTAAAACAGAGAGAGAGGGAGCTGGGTCGGTTACTGCCATTGGCGATGGGAAATATTTGTGTACAGGAAAAAAATCAATATGGAGAAACAAAAAAGATCAGCACCATCATCATCATTTACAGATTTTGTCCCCAAGTGGTGTGATGAAAACATCACTTCTGCTTCTGCTTCTGTTGCTGCTGCATGTGTATATTACAGTCCAGTAATAATTCCAAAGTATCGATATGGAAAAACAAAATATTTCATCAAATCAATATGTGTACTGGATATATCATCACATTTCTCTTTTTAAGTGATCGTGATTAACAGTCTGACACAGCTTGCATTGTCAATACAATAATACTTCTCATGAC

Ace file of the UniGene sp_v3.0_unigene2888 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	R2r3-myb transcription factor, putative n=1 Tax=Ricinus communis RepID=B9S8Y5_RICCO	-	-	0.0	79%
FL-Next	tr=R2R3-MYB transcription factor MYB3; Pinus taeda (Loblolly pine).	-	-	0.0	78%
Sma3	MYB transcription factor	-	-	9.612e-26	-

Source	Gene names
Sma3	AT4g33450; AT4g37260; At1g17950; At1g26780; At1g69560; At1g73410; At2g23290; At2g39880; At3g09230; At3g09370; At3g29020; At3g50060; At3g55730; At4g33450; At4g37260; At5g02320; At5g17800; At5g39700; At5g67300; AtMYB77; B1377B10.16; B19; C7A10.100; CHLREDRA

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	cytoplasm	GO:0005737	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	-
Sma3	response to water deprivation	GO:0009414	Biological Process	-
Sma3	response to salt stress	GO:0009651	Biological Process	-
Sma3	response to ethylene stimulus	GO:0009723	Biological Process	-
Sma3	response to auxin stimulus	GO:0009733	Biological Process	-
Sma3	response to abscisic acid stimulus	GO:0009737	Biological Process	-
Sma3	abscisic acid mediated signaling pathway	GO:0009738	Biological Process	-
Sma3	response to gibberellin stimulus	GO:0009739	Biological Process	-
Sma3	response to salicylic acid stimulus	GO:0009751	Biological Process	-
Sma3	response to jasmonic acid stimulus	GO:0009753	Biological Process	-
Sma3	response to chitin	GO:0010200	Biological Process	-
Sma3		GO:0045449	Biological Process	-
Sma3	response to cadmium ion	GO:0046686	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domain	IPR000194	-	-
Sma3	SANT/Myb domain	IPR001005	-	-
Sma3		IPR012287	-	-
Sma3		IPR014778	-	-
Sma3	Myb transcription factor	IPR015495	-	-
Sma3	Myb-like domain	IPR017877	-	-
Sma3	Myb domain, DNA-binding	IPR017930	-	-
Sma3	EF-Hand 1, calcium-binding site	IPR018247	-	-
Sma3	Chaperonin Cpn60, conserved site	IPR018370	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G26780.2	MYB117, AtMYB117, LOF1 myb domain protein 117 chr1:9271033-9272463 FORWARD LENGTH=359	71%
RefSeq	Arabidopsis thaliana	NP_564261.1	myb domain protein 117 [Arabidopsis thaliana]	71%
RefSeq	Populus trichocarpa	XP_002315045.1	predicted protein [Populus trichocarpa]	75%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: Q27IN9

Fln msg: your sequence is longer than subject: 486 - 327

Fln protein: MCHTQKDGPSGNWIRPENRLNNPMMQNTRISAESRQFLVVGSSGFMRPGVESESANEETMLMNDSTTNAYTAVTTPCDPKSWTIQMGSMESSSGHHSAKVSSDNNNMGNLGDSNEEVENSVDGVQSRLCARGHWRPAEDAKLKELVSQYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINRRPFSEEDEEKLLAAHRLYGNKWAMIARLFPGRTDNAVKNHWHVIMARRYREQSSAFGRRKLPQVHRREKRACTDDETRMGTSCNMWVDKYSSLKSAHDVIFRRGSVCKSQILGDNSSCVTAFGASRVDNDERCGNLDRLQQRISAASIARHQQQQQQKGYMSSLDAVQSRIFFEGSREMKINNNYNKAVDVLGSNVDNYHILVSQMEGESSSPSQLTTDSCAAVSLLQGAFASSKRSSVVNTNFSLGHQQEVVQYGYSDSSASDQLSAVEVSYADNSSTTEAANEFKKPNAGFIDFLGVGTT*

Protein Length: 487

Fln nts: GATACCACTGCTTAAGCAGTGGTATCAACGCAGAGTACGCGGGGGGAGTAGGGAGAATAGACATTGAGCCTGAGCAAGCAAGTAGAGCTTGAAGAGAGGCCGGGTCCATTTTCCGACCGAGAGTTGGAAAC_-_ATGTGCCATACACAGAAAGACGGACCGAGCGGAAATTGGATTAGGCCCGAGAATCGTTTGAATAATCCCATGATGCAAAATACGAGAATTTCAGCAGAAAGCAGGCAATTTCTCGTAGTGGGCAGCAGTGGATTCATGCGGCCTGGAGTGGAAAGTGAGTCTGCAAACGAAGAAACCATGTTGATGAATGATAGTACCACGAATGCCTACACTGCTGTAACAACGCCTTGTGACCCAAAGAGCTGGACAATCCAAATGGGGTCCATGGAGAGCAGCTCTGGGCATCACAGTGCAAAGGTTTCAAGTGATAATAACAACATGGGGAACCTGGGGGATTCAAATGAAGAAGTTGAAAATTCTGTAGATGGGGTGCAATCTAGGCTTTGTGCCAGAGGCCATTGGAGGCCTGCTGAGGACGCCAAGCTTAAAGAATTGGTGTCACAGTATGGGCCTCAGAACTGGAACCTGATAGCAGAGAAGCTTGAAGGAAGATCAGGAAAGAGCTGCAGGCTTCGATGGTTTAATCAGTTGGACCCGAGAATCAACCGAAGGCCTTTCAGTGAAGAAGATGAGGAGAAGCTACTGGCAGCCCATCGTTTATATGGGAATAAATGGGCCATGATTGCCCGCTTATTTCCTGGGAGAACTGATAACGCTGTGAAGAACCATTGGCACGTTATCATGGCCAGGAGATACAGAGAGCAATCCAGTGCTTTTGGGAGAAGGAAATTGCCTCAAGTGCATAGAAGAGAGAAACGTGCCTGCACTGATGATGAAACGAGGATGGGCACCAGCTGCAACATGTGGGTGGATAAATATAGCTCTCTCAAATCTGCCCATGATGTAATTTTCAGAAGAGGATCTGTATGTAAGAGCCAGATTTTGGGAGATAACTCATCATGTGTTACAGCTTTTGGTGCTTCTAGGGTTGATAATGATGAACGGTGTGGAAATTTGGATAGATTGCAACAGAGAATCAGTGCAGCTTCCATTGCTCGTCACCAGCAGCAGCAGCAGCAGAAAGGTTACATGAGCAGCTTGGATGCAGTTCAATCCAGGATTTTCTTTGAAGGGTCCAGGGAGATGAAGATCAATAACAACTATAATAAGGCTGTGGATGTGTTAGGCAGCAATGTGGACAATTATCATATATTGGTCTCACAGATGGAAGGAGAATCATCTTCCCCCAGCCAGCTGACAACTGATTCCTGTGCTGCAGTGAGTTTATTGCAAGGTGCTTTTGCAAGTTCCAAGAGATCTTCAGTTGTCAATACAAATTTTAGTCTTGGTCATCAGCAGGAGGTTGTGCAGTATGGGTACTCAGATTCTAGTGCCTCCGATCAGTTATCCGCTGTGGAGGTTTCTTATGCTGATAACTCATCGACTACGGAAGCGGCGAATGAGTTCAAGAAACCTAATGCAGGTTTCATTGATTTTCTGGGAGTAGGGACAACATGA___AGTAATTTATTACCATCTAGGGTTTATTTCATGGGGTCATTTATTATTCAAACTTGTTGTTTGACGACTGCATTGATGTTGTCTGAAGAGGCGTTTAAAACAGAGAGAGAGGGAGCTGGGTCGGTTACTGCCATTGGCGATGGGAAATATTTGTGTACAGGAAAAAAATCAATATGGAGAAACAAAAAAGATCAGCACCATCATCATCATTTACAGATTTTGTCCCCAAGTGGTGTGATGAAAACATCACTTCTGCTTCTGCTTCTGTTGCTGCTGCATGTGTATATTACAGTCCAGTAATAATTCCAAAGTATCGATATGGAAAAACAAAATATTTCATCAAATCAATATGTGTACTGGATATATCATCACATTTCTCTTTTTAAGTGATCGTGATTAACAGTCTGACACAGCTTGCATTGTCAATACAATAATACTTCTCATGAC

Fln Alignment:

Contig2888___QSRLCARGHWRPAEDAKLKELVSQYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINRRPFSEEDEEKLLAAHRLYGNKWAMIARLFPGRTDNAVKNHWHVIMARRYREQSSAFGRRKLPQVHRREK
Q27IN9______________QAKMCPRGHWRPAEDEKLRELVEQYGPQNWNSIAEKLHGRSGKSCRLRWFNQLDPRINRRPFTEEEEERLLAAHRLHGNKWAMIARLFPGRTDNAVKNHWHVIMARKFRERSRIYGKRRSSCSHLMRK

SNPs (tot: 18)

Position	A %	C %	G %	T %	Probability
840	88	11			0.923564
841	88	11			0.923564
842		11	88		0.923564
860		21		78	1.0
923	90		10		0.90298
1000		80		20	0.995493
1001			20	80	0.995493
1004	80		20		0.995493
1010	20			80	0.995493
1012	80		20		0.995493
1014		20	80		0.995493
1016		20	80		0.995493
1017			20	80	0.995493
1018	20			80	0.995493
1019	80	20			0.995493
1020			20	80	0.995493
1085	75		25		0.996473
1870	90			10	0.90298

SSRs (tot: 3)

Start position	End position	Sequence	Length
181	198	CAGAAG CAGAAG CAGAAG	18
238	249	ATG ATG ATG ATG	12
886	903	CTG CTG CTG CTG CTG CTG	18

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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