SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene6866

Length: 2090 nt

UniGene Fasta

>sp_v3.0_unigene6866
ATGGGGGAATCTTTCTGCACAAAGTTTGATGATTATGATAGGACACTGAATCCGTGGTGATGGCCAGTCTGTATAATATAATTTTTCATCATTATACTACACGTAAATGGATGGCGGCTGTCAAATTTCCGACAAATTAAGACCGACCACCGGGCAAAACTCCGGTCGTGACCTGCGGTGCCGGACGTTCGAATTCCCCACATATTCCTGTTTGCTCTGGTTTATGTTTATATTTACAGAATCCTCAACGGAAGCATTTAGAGAGTGGAGCTTTGGCGGACAGAGCCTTGAATGATCTCAAAGAAAGAAGCCAAGGGCGACTTTTTACAGAGGATGCAGCTGATCCAGCTGGAAATTGTTACGGTGACAATAAGCAGCCAGAAAATTTCAAGATTTCAGAGGAGATAGCAACAACACATTTGAGGGCTAAAGGTGATGATCCTGCAAATATGGAAGAAGTCTATGGGAATCATAACCTTCCATCTAATTCAGAGTGGAGTCTAGAGTCGGAGATCCCTCAAGGTGATATAAAATGTTTGCTCATTGAATGTGCAAAAGCTATTGCAGATAACCGTAATGCAGATAAGTTGATTGCAGAGTTGAGACAAGCTGTTTCTATATTTGGGGATCCAATGCAAAGGTTAGGTGCATATATGGTAGAAGGTCTTGTAGCAAGGTTGCAGTTTTCAGGAGGACATATTTACAAAACCTTAAAATGCAAGGAGCCTACCAGTGCCGAACTCCTCTCTTACATGCAAACTTTCTACAAAATTTGTCCTTATTTCAAATTTGGGCATATGTCTGCGAATGCTGTCATTGTAGAAGCTCTTAATGACAAAGACAGGGTGCACATAATTGATTTTCAGATTGCTCTAGGTACCCAGTGGGTACCAGTGATTCAAGCATTTGCAGCGAGACAAGGTGGCTCACCTCATGTTCGCATTACTGGTGTGGATGATCCTGTATCAGAGTTTGCTCGGGGTCAAGGATTACAATTGGTTGGCCAAAGGTTATCAAAGCTTGCTGAAACTTGTCAGGTTCCTTTCGAATTTCATGCTTTGCCTGTGTATGCATCTGACGTTCATGCTGATATGTTTGATATTCGACCTGGGGAAGCATTGGCTGTAAATTTTCATTTAGTGCTCCATCATATACCTGATGAAAGTGTGAGTACAAATAACCATCGAGACCGGCTTATAAGAATGGTGAAAGGCTTTGCTCCAACTGTGGTAACGTTGGTGGAGCAAGAAGCTAATACTAATACTGCACGTTTCTTTCCAAGATTCATGGAGACTTTAAGTTATTATGCAGCTATGTTTGAATCTTTGGATTTAACTCTGCCAAGGGAAAGCAAAGAGCGTGTCAGTGTGGAGCAGCACTGTCTAGCACGTGATATTGTGAATATTATTGCATGTGAAGGTGCTGAAAGGGTGGAAAGGCATGAGCTTTTTGGCAAGTGGAGGTCCCGTTTGACTATGGCTGGCTTTAAATCTCACGCTCTAAGCTCTCGTGTTAATGCCACTATCAAGGTTGCCTTGGAGTCTTATAATCAGAATTACAGGGTGGTAGAAAAGGATAATGTTCTTTATCTGGGTTGGTTAGGCAGGGACTTGTATGTGTCTTCTGCATGGAAGTAATGTGTTAACATAGCCTCTCCTAGTGAAGGTAAGTATCTGTCATGTGACTTGGGCTTTACTCATTGAAAACATTTAGTAGTGCATGTCATCTTTCATCGATAGACATGTATGTATGGAAAGAGTTGCTTAGCCACAAGATTATCAAAGCTGTTATGGCTGAATTCCAAAATTGTAATTAAAGTTATTTGCAAGATATGTATTTGGGATTTACCAAAACTGAAAATTTCTGCGCATGATTTTATTAATTAATCAATTTTCTCGTTTCAAGAACTGAAACATATACCTGAGAAAACAGATTGCTTAACTAAAAATTAGCGGCCAAACAGCAGTATTGTTCGGAATGCTTGTGCAGTGGATAGAAAATATTTGTCTCAACATCTTGGTTAGATATTTCAATCATGAGAAAATGTACACTATTGGGTTACTTGTCAGCATCTGCATGAAACTTGATAC

Ace file of the UniGene sp_v3.0_unigene6866

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	GRAS family transcription factor n=1 Tax=Populus trichocarpa RepID=B9IAQ7_POPTR	-	-	0.0	58%
FL-Next	tr=SCARECROW-like protein 1; Pinus radiata (Monterey pine) (Pinus insignis).	-	-	0.0	32%
Sma3	GRAS family transcription factor	-	-	3.862e-26	-

Source	Gene names
Sma3	31.t00010; AT4G17230; AT5G48150; At1g21450; At1g50600; At2g04890; At4g17230; At5g48150; B1065E10.4; CIGR1; CIGR2; F11F12.8; F17J6.12; F1O13.2; F24J8.8; FCAALL.225; GRAS1; GRAS2; GRAS49; GRAS50; GRAS51; GRAS52; GRAS53; GRAS54; GRAS55; GRAS56; GRAS57; GRAS6

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	cytoplasm	GO:0005737	Cellular Component	-
Sma3	signal transducer activity	GO:0004871	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	-
Sma3	photomorphogenesis	GO:0009640	Biological Process	-
Sma3	response to chitin	GO:0010200	Biological Process	-

Source	InterPros	Term	Type	e value	Identity
Sma3	Transcription factor GRAS	IPR005202	-	0.0	-
Sma3	Carbamoyl-phosphate synthetase, large subunit, ATP-binding	IPR005479	-	0.0	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT5G48150.1	PAT1 GRAS family transcription factor chr5:19522497-19524053 REVERSE LENGTH=490	56%
RefSeq	Arabidopsis thaliana	NP_199626.1	scarecrow-like transcription factor PAT1 [Arabidopsis thaliana]	56%
RefSeq	Populus trichocarpa	XP_002321179.1	GRAS family transcription factor [Populus trichocarpa]	58%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: coniferopsida.fasta

Fln subject: A3E2G2

Fln msg: Unexpected stop codon in the beginning of your sequence, your sequence is shorter than subject: 545 - 810

Fln protein: GGIFLHKV**L**DTESVVMASLYNIIFHHYTTRKWMAAVKFPTN*DRPPGKTPVVTCGAGRSNSPHIPVCSGLCLYLQNPQRKHLESGALADRALNDLKERSQGRLFTEDAADPAGNCYGDNKQPENFKISEEIATTHLRAKGDDPANMEEVYGNHNLPSNSEWSLESEIPQGDIKCLLIECAKAIADNRNADKLIAELRQAVSIFGDPMQRLGAYMVEGLVARLQFSGGHIYKTLKCKEPTSAELLSYMQTFYKICPYFKFGHMSANAVIVEALNDKDRVHIIDFQIALGTQWVPVIQAFAARQGGSPHVRITGVDDPVSEFARGQGLQLVGQRLSKLAETCQVPFEFHALPVYASDVHADMFDIRPGEALAVNFHLVLHHIPDESVSTNNHRDRLIRMVKGFAPTVVTLVEQEANTNTARFFPRFMETLSYYAAMFESLDLTLPRESKERVSVEQHCLARDIVNIIACEGAERVERHELFGKWRSRLTMAGFKSHALSSRVNATIKVALESYNQNYRVVEKDNVLYLGWLGRDLYVSSAWK*

Protein Length: 546

Fln nts: ATGGGGGAATCTTTCTGCACAAAGTTTGATGATTATGATAGGACACTGAATCCGTGGTGATGGCCAGTCTGTATAATATAATTTTTCATCATTATACTACACGTAAATGGATGGCGGCTGTCAAATTTCCGACAAATTAAGACCGACCACCGGGCAAAACTCCGGTCGTGACCTGCGGTGCCGGACGTTCGAATTCCCCACATATTCCTGTTTGCTCTGGTTTATGTTTATATTTACAGAATCCTCAACGGAAGCATTTAGAGAGTGGAGCTTTGGCGGACAGAGCCTTGAATGATCTCAAAGAAAGAAGCCAAGGGCGACTTTTTACAGAGGATGCAGCTGATCCAGCTGGAAATTGTTACGGTGACAATAAGCAGCCAGAAAATTTCAAGATTTCAGAGGAGATAGCAACAACACATTTGAGGGCTAAAGGTGATGATCCTGCAAATATGGAAGAAGTCTATGGGAATCATAACCTTCCATCTAATTCAGAGTGGAGTCTAGAGTCGGAGATCCCTCAAGGTGATATAAAATGTTTGCTCATTGAATGTGCAAAAGCTATTGCAGATAACCGTAATGCAGATAAGTTGATTGCAGAGTTGAGACAAGCTGTTTCTATATTTGGGGATCCAATGCAAAGGTTAGGTGCATATATGGTAGAAGGTCTTGTAGCAAGGTTGCAGTTTTCAGGAGGACATATTTACAAAACCTTAAAATGCAAGGAGCCTACCAGTGCCGAACTCCTCTCTTACATGCAAACTTTCTACAAAATTTGTCCTTATTTCAAATTTGGGCATATGTCTGCGAATGCTGTCATTGTAGAAGCTCTTAATGACAAAGACAGGGTGCACATAATTGATTTTCAGATTGCTCTAGGTACCCAGTGGGTACCAGTGATTCAAGCATTTGCAGCGAGACAAGGTGGCTCACCTCATGTTCGCATTACTGGTGTGGATGATCCTGTATCAGAGTTTGCTCGGGGTCAAGGATTACAATTGGTTGGCCAAAGGTTATCAAAGCTTGCTGAAACTTGTCAGGTTCCTTTCGAATTTCATGCTTTGCCTGTGTATGCATCTGACGTTCATGCTGATATGTTTGATATTCGACCTGGGGAAGCATTGGCTGTAAATTTTCATTTAGTGCTCCATCATATACCTGATGAAAGTGTGAGTACAAATAACCATCGAGACCGGCTTATAAGAATGGTGAAAGGCTTTGCTCCAACTGTGGTAACGTTGGTGGAGCAAGAAGCTAATACTAATACTGCACGTTTCTTTCCAAGATTCATGGAGACTTTAAGTTATTATGCAGCTATGTTTGAATCTTTGGATTTAACTCTGCCAAGGGAAAGCAAAGAGCGTGTCAGTGTGGAGCAGCACTGTCTAGCACGTGATATTGTGAATATTATTGCATGTGAAGGTGCTGAAAGGGTGGAAAGGCATGAGCTTTTTGGCAAGTGGAGGTCCCGTTTGACTATGGCTGGCTTTAAATCTCACGCTCTAAGCTCTCGTGTTAATGCCACTATCAAGGTTGCCTTGGAGTCTTATAATCAGAATTACAGGGTGGTAGAAAAGGATAATGTTCTTTATCTGGGTTGGTTAGGCAGGGACTTGTATGTGTCTTCTGCATGGAAGTAA___TGTGTTAACATAGCCTCTCCTAGTGAAGGTAAGTATCTGTCATGTGACTTGGGCTTTACTCATTGAAAACATTTAGTAGTGCATGTCATCTTTCATCGATAGACATGTATGTATGGAAAGAGTTGCTTAGCCACAAGATTATCAAAGCTGTTATGGCTGAATTCCAAAATTGTAATTAAAGTTATTTGCAAGATATGTATTTGGGATTTACCAAAACTGAAAATTTCTGCGCATGATTTTATTAATTAATCAATTTTCTCGTTTCAAGAACTGAAACATATACCTGAGAAAACAGATTGCTTAACTAAAAATTAGCGGCCAAACAGCAGTATTGTTCGGAATGCTTGTGCAGTGGATAGAAAATATTTGTCTCAACATCTTGGTTAGATATTTCAATCATGAGAAAATGTACACTATTGGGTTACTTGTCAGCATCTGCATGAAACTTGATAC

Fln Alignment:

Contig6866___DIKCLLIECAKAIA--DNRNADKLIAELRQAVSIFGDPMQRLGAYMVEGLVARLQFSGGHIYKTLKCKEPTSA-ELLSYMQTFYKICPYFKFGHMSANAVIVEALNDKDRVHIIDFQIALGTQWVPVIQAFAARQGGSPHVRITGVDDPVSEFARGQGLQLVGQRLSKLAETCQVPFEFHALPVYASDVHADMFDIRPGEALAVNFHLVLHHIPDESVSTNNHRDRLIRMVKGFAPTVVTLVEQEANTNTARFFPRFMETLSYYAAMFESLDLTLPRESKERVSVEQHCLARDIVNIIACEGAERVERHELFGKWRSRLTMAGFKSHALSSRVNATIKVALES-YNQNYRVVEKDNVLYLGWLGRDLYVSSAWK
A3E2G2______________DLRSLLLICAQSVAADDTRGANETLKQIRQHASAYGDGSQRLANYFADGIAARLSGSGGRLFTMISSGALSSAAEILKAYQLLLVATPFKKISHFMTYQTVLNVAEGETRLHIVDFGILYGFQWPSLIQCLANRPGGPPMLRITGIEFPQPGFRPAERIEETGRRLEDYAKSFGVPFEYQAIATKWENLDVEELGLRSDEVLVVNCLGRLRNLLDETVVQDSPRNIVLNKIRSMNPRVFIQGVVNGAYNASFFITRFREALFHYSALFDALETTVPRDNQQRFLIEKEIFGREILNVVACEGSERLERPETYKQWQGRTQRAGFVQLPLDRSILSKSRDKVKTFYHKDFGVDEDGNWMLLGWKGRTIHALSTWR

SNPs (tot: 30)

Position	A %	C %	G %	T %	Probability
448	90		10		0.90298
574		88		11	0.923564
657	20		80		0.995493
658		20	80		0.995493
660	80			20	0.995493
692	20		80		0.995493
694			80	20	0.995493
696	80			20	0.995493
723			75	25	1.0
794	12		87		0.992554
800	87			12	0.992554
1010	88			11	0.923564
1040	11		88		0.923564
1042			11	88	0.923564
1043		88		11	0.923564
1059		88		11	0.923564
1095		11		88	0.923564
1130	85	14			0.993533
1165	87	12			0.992554
1167			87	12	0.992554
1216		88		11	0.923564
1273	16			83	0.994512
1274		16		83	0.994512
1275	16			83	0.994512
1276		83		16	0.994512
1310	75		25		0.996473
1388	16		83		0.994512
1424	16		83		0.994512
1863	22			77	0.999999
1911	10	90			0.90298

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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