SustainPineDB

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene7820

Length: 3231 nt

Origin of reads: Inia v1 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_unigene7820
ATGGGGAGCTTCGGGCAGCTTGAAGGCCGCCTGTCAGCACTGGATGCTGCGTCGTGACCTTGGCTGTCACTCCTCTTCCTGCTCTCCCCTTCCCGTTCGTCAACTTCTTCGCCCTTCTTTATTAATGATGCAACCAGATGTTAATGAAAAATTTGCCAACGCTTTTTGGGTTTGGAAACAAGATTTTGCCATCTGGTGAAGAGCGCCTGGTTTTGATCCAGAATTCTCGGATTTTGCTTCATTGGGCTTCGACTTCGGCCAAAAATGGACGAGCAATCCGCAATGCAACACATGCCTATGCATTACAGGGCAACGCCTTATCCGAATGCTCAGCTGCAGCCTAACATTGCTCATGGAGCGTTCCAGCAGCCCTCCATTCATGGCCATCCTCATGCTCTATCTTCCCACCACAATCAATTGCCTTATCAGCAGCAAATTCATCAGCACCAACGCCAGCTGCATCATCACCAGCAGCAGCAGATCGAGGTTTTCTGGGCCAACCAGATGCAGGAAATCGAGCAAGCTGTCGATTTCAGAAATCACAGTCTCCCTCTCGCGAGAATCAAGAAGATAATGAAGTCAGACGACGAGAATGTCAGGATGATATCTGCGGAGGCTCCCGTGGTGTTTGCCAAGGCCTGCGAGATGTTCATCAATGAGCTTACTCTAAGGGCCTGGATTCACACTGAAGAAAACAAGAGACGAACCCTGCAGAAGAACGATATAGCTGCGGCCATAGCCAGGACTGATATATTCGATTTCCTGATCGATATTGTTCCCAGGGATGAGTTGAAGGAGGATCAGGTTATTAATCTTGGAAACCCTAGATCTGTACTCTCAGTTGGAAGCAGCAGTACCAACGCTGCTGCTGCTGCTGTTGGTGCTGCTAATTCTTTCTACTATTGCGACAACTGATATTGAAAATGCTGCTGCTGATGTATCTTAAGTTGTTGTGCTTGTGCTTGCATCATTTCTTGCTGCTTTAGAACTTGGTGGTGTTGTTGCAGAGCATTTATATTATTTTGTTGTAGAGAATTCATGCCATTCTGCTGTAAGGAGCTAATATTATTCTTCTGAAGAGGAGCATTATTTTGCTGAAGAGAATTAATATTATTATTATGTTGAAGATGGTTTAATGAACTCTGCTGCAAGGAAGTTACACCACATCCTTGCGATGCATTTAGATTGGTGGCAGACTGCATCGTAGTACAAATATTTTGGTGTGATGTTTGTCCACCAGATTGCTGTAACAGAGGCATGGAACTGTGCTGAATAGGTGTCGTGCTGTTTGGTTGCATTGAAGTAACCGAAGGCTGTAAATTCATCTGTTGGAGTGGATTAACATGCTTCTCTTGTGGTTGCATAGATTGCACTTGGTTGTTAACTTGGCTTGGAAGTTGTTGCTGTCCCTGTTGTTGTTGTGGAGGAGCTTTCCTCTGCTTAAACGAGTTCAGAATGGCTTGAATCTGTTTCTCGAAAGCATCAACCTTGTCTTCTTTAAACCCTGGTGGAATACTGCTCTTTGGAACTTGAAAATATGCCATCATACGGTGCAAAGTAGTTTTGTAGTGCTTAAGCTTTTCGGATTGATCAGGTTGCATGGGCTGCTGACATTTCGTTTGAAGTTTGTTAAACAAATCTTTTATCTCTAGAAAATACATCTCCTTCAGAGTTTGTAGTCTCTGATAAACCTTCTCTTGCCAGTCAGCAGGAGTTGGTTGTCCAGTTTGACCTGATGATTCCATTGATGTTGAAGAGCCCTCTGGCAGACCGCGCGGTTGTAATAGCTGCTTTTGTTGTTCAATAGAGCTCGGTTGCTGCTGCTGCTGCAACAAACCACCAGTTGTCTGAAGCCTTTGCAGCTCTTGCTGCATTGGATTTGGTTGCTGTAACAGTCGCTGCTGTTGCTGCATTGGTTGGGTCTGAGATTGGAGCTGAGAGAGAAGCTGCTGCTGTTGTGACTGTTGCTGCAACTGCTGGGATTGTGATTGTAATAGTGATGATGATGTCTGCTGTGTTTGCTGATGTTTGGATTGCAAAAGCTGGTGAATTTGATGCTGGTGTTGCTGCTGCTGCATGTTTTGCTGACCAAAAAGTTGTTGGTGTTGTTGATGTGGTTGTAGAATTGACTGCTGAACCATAGAAGACTGCTGTTGCTGTTGTATAACAGATTGCTGTGATTGTTGCTGCCTAAGCATAGATTGCTGATGCTGCTGAAGGGGAGTCTGAGATGCTTGTTGTAGAGCAGATTGCTGAGTTGACTGAAGGACAGATTGTTGAGCAGGTTGTAGAATAGAGGGCTGGGATTGCTGTAGAATAGACTGTTGAGTTGATTGGAGAGCAGGTTGTTGAGCTGGTTGTAGCATAGCCTGCTGCGATGGCTGGAGCTGACTCTGTGGGAAGGCTGATTGTTGCTGTTGAAGAAGTGATGGTTGTAATTGAGACTGTTGTTGAAGCTTCTTGTTCAGAAGAGCCTGTTGCTGTTGGTGCAACTGCTGTTGAAAAATTTGATGTTGCTGCTGCTGCTGTTGTCTTGATTGTAGCTGCCTCTGATTGCTTGCAAGAAGAGGAGGTAAAACTTGACTTGTTGAGCTATTAATGGAATTATGTGGCATTCCTTGCATAGGTGGCAGACCATTAGGAATCGAAGACAAGGAAGGTGCCAAACCAGCTGAGCTCGGCATTCCACCTGCAGATATGCTATTTTGCAGATTTTGTTGGAGCATTGGTTGTTGTGGTTGAGGTTGCCCAGTCAGTGGGAGATTATTTGCAGATGCTTGCTGTTGATTTCTAATCTGTGGTCGTAACATCATACCTCCAGGATCCAGAGGCCGCTGGTTGTTACCAGGAGAACTACCCGGAAAATGATTCGAAGGTCCATTAGCTTTTGATTCTAATGATAGCATCTTGAGAGATATTCTCCGTAGATAGTCTTGCTGACTTATAGCGACTGTATAAATCTTCTCCTCAAACCGCAAAGCAATTTTTTTCAGTTCATTCATTCCATCTGCACCCGTCTGTGGCAAGTGTCTCTGAAGAGTGTCCATTATCTTATTGACGATCTTCTGCCTGGATTCCTCATTCCTCCAGTTGTTGGTCTCCATGGCGCTCTGCCGGTTTGGTAAACGACGAGAAAGGAGTGTTGTGCAGAGGATTTGGGGCGAGGGTGTGTGGCTTTTACCAATATTATACAGAAAGAAAACGGATTGAGTGACAGCCAAGGTCACGACG

Ace file of the UniGene sp_v2.0_unigene7820 (antisense)

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	Nuclear transcription factor Y subunit C-2 n=2 Tax=Arabidopsis RepID=NFYC2_ARATH	-	-	58%
FL-Next	sp=Nuclear transcription factor Y subunit C-2; Arabidopsis thaliana (Mouse-ear cress).	-	-	58%
Blast2go	nuclear transcription factor y subunit c-2	-	-	79%

Source	GOs	Term	Type	Identity
Blast2go	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	79%
Blast2go	sequence-specific DNA binding transcription factor activity	GO:0003700	Molecular Function	79%
Blast2go	sequence-specific DNA binding	GO:0043565	Molecular Function	79%
Blast2go	protein binding	GO:0005515	Molecular Function	79%
Blast2go	cytoplasm	GO:0005737	Cellular Component	79%
Blast2go	CCAAT-binding factor complex	GO:0016602	Cellular Component	79%

Source	InterPros	Term	Type	Identity
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3	Tobamoviral movement protein	IPR001022	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Peptidase aspartic, active site	IPR001969	-	-
Sma3	Transcription factor CBF/NF-Y/archaeal histone	IPR003958	-	-
Sma3	Mlo-related protein	IPR004326	-	-
Sma3	Major pollen allergen Lol pI	IPR005795	-	-
Sma3	Pollen allergen/expansin, C-terminal	IPR007117	-	-
Sma3	Histone-fold	IPR009072	-	-

Full-Lengther Next Prediction

Fln status: Complete

Fln database: sp_plants

Fln subject: Q8LCG7

Fln msg:

Fln protein: MDEQSAMQHMPMHYRATPYPNAQLQPNIAHGAFQQPSIHGHPHALSSHHNQLPYQQQIHQHQRQLHHHQQQQIEVFWANQMQEIEQAVDFRNHSLPLARIKKIMKSDDENVRMISAEAPVVFAKACEMFINELTLRAWIHTEENKRRTLQKNDIAAAIARTDIFDFLIDIVPRDELKEDQVINLGNPRSVLSVGSSSTNAAAAAVGAANSFYYCDN*

Protein Length: 218

Fln nts: ATGGGGAGCTTCGGGCAGCTTGAAGGCCGCCTGTCAGCACTGGATGCTGCGTCGTGACCTTGGCTGTCACTCCTCTTCCTGCTCTCCCCTTCCCGTTCGTCAACTTCTTCGCCCTTCTTTATTAATGATGCAACCAGATGTTAATGAAAAATTTGCCAACGCTTTTTGGGTTTGGAAACAAGATTTTGCCATCTGGTGAAGAGCGCCTGGTTTTGATCCAGAATTCTCGGATTTTGCTTCATTGGGCTTCGACTTCGGCCAAAA_-_ATGGACGAGCAATCCGCAATGCAACACATGCCTATGCATTACAGGGCAACGCCTTATCCGAATGCTCAGCTGCAGCCTAACATTGCTCATGGAGCGTTCCAGCAGCCCTCCATTCATGGCCATCCTCATGCTCTATCTTCCCACCACAATCAATTGCCTTATCAGCAGCAAATTCATCAGCACCAACGCCAGCTGCATCATCACCAGCAGCAGCAGATCGAGGTTTTCTGGGCCAACCAGATGCAGGAAATCGAGCAAGCTGTCGATTTCAGAAATCACAGTCTCCCTCTCGCGAGAATCAAGAAGATAATGAAGTCAGACGACGAGAATGTCAGGATGATATCTGCGGAGGCTCCCGTGGTGTTTGCCAAGGCCTGCGAGATGTTCATCAATGAGCTTACTCTAAGGGCCTGGATTCACACTGAAGAAAACAAGAGACGAACCCTGCAGAAGAACGATATAGCTGCGGCCATAGCCAGGACTGATATATTCGATTTCCTGATCGATATTGTTCCCAGGGATGAGTTGAAGGAGGATCAGGTTATTAATCTTGGAAACCCTAGATCTGTACTCTCAGTTGGAAGCAGCAGTACCAACGCTGCTGCTGCTGCTGTTGGTGCTGCTAATTCTTTCTACTATTGCGACAACTGA___TATTGAAAATGCTGCTGCTGATGTATCTTAAGTTGTTGTGCTTGTGCTTGCATCATTTCTTGCTGCTTTAGAACTTGGTGGTGTTGTTGCAGAGCATTTATATTATTTTGTTGTAGAGAATTCATGCCATTCTGCTGTAAGGAGCTAATATTATTCTTCTGAAGAGGAGCATTATTTTGCTGAAGAGAATTAATATTATTATTATGTTGAAGATGGTTTAATGAACTCTGCTGCAAGGAAGTTACACCACATCCTTGCGATGCATTTAGATTGGTGGCAGACTGCATCGTAGTACAAATATTTTGGTGTGATGTTTGTCCACCAGATTGCTGTAACAGAGGCATGGAACTGTGCTGAATAGGTGTCGTGCTGTTTGGTTGCATTGAAGTAACCGAAGGCTGTAAATTCATCTGTTGGAGTGGATTAACATGCTTCTCTTGTGGTTGCATAGATTGCACTTGGTTGTTAACTTGGCTTGGAAGTTGTTGCTGTCCCTGTTGTTGTTGTGGAGGAGCTTTCCTCTGCTTAAACGAGTTCAGAATGGCTTGAATCTGTTTCTCGAAAGCATCAACCTTGTCTTCTTTAAACCCTGGTGGAATACTGCTCTTTGGAACTTGAAAATATGCCATCATACGGTGCAAAGTAGTTTTGTAGTGCTTAAGCTTTTCGGATTGATCAGGTTGCATGGGCTGCTGACATTTCGTTTGAAGTTTGTTAAACAAATCTTTTATCTCTAGAAAATACATCTCCTTCAGAGTTTGTAGTCTCTGATAAACCTTCTCTTGCCAGTCAGCAGGAGTTGGTTGTCCAGTTTGACCTGATGATTCCATTGATGTTGAAGAGCCCTCTGGCAGACCGCGCGGTTGTAATAGCTGCTTTTGTTGTTCAATAGAGCTCGGTTGCTGCTGCTGCTGCAACAAACCACCAGTTGTCTGAAGCCTTTGCAGCTCTTGCTGCATTGGATTTGGTTGCTGTAACAGTCGCTGCTGTTGCTGCATTGGTTGGGTCTGAGATTGGAGCTGAGAGAGAAGCTGCTGCTGTTGTGACTGTTGCTGCAACTGCTGGGATTGTGATTGTAATAGTGATGATGATGTCTGCTGTGTTTGCTGATGTTTGGATTGCAAAAGCTGGTGAATTTGATGCTGGTGTTGCTGCTGCTGCATGTTTTGCTGACCAAAAAGTTGTTGGTGTTGTTGATGTGGTTGTAGAATTGACTGCTGAACCATAGAAGACTGCTGTTGCTGTTGTATAACAGATTGCTGTGATTGTTGCTGCCTAAGCATAGATTGCTGATGCTGCTGAAGGGGAGTCTGAGATGCTTGTTGTAGAGCAGATTGCTGAGTTGACTGAAGGACAGATTGTTGAGCAGGTTGTAGAATAGAGGGCTGGGATTGCTGTAGAATAGACTGTTGAGTTGATTGGAGAGCAGGTTGTTGAGCTGGTTGTAGCATAGCCTGCTGCGATGGCTGGAGCTGACTCTGTGGGAAGGCTGATTGTTGCTGTTGAAGAAGTGATGGTTGTAATTGAGACTGTTGTTGAAGCTTCTTGTTCAGAAGAGCCTGTTGCTGTTGGTGCAACTGCTGTTGAAAAATTTGATGTTGCTGCTGCTGCTGTTGTCTTGATTGTAGCTGCCTCTGATTGCTTGCAAGAAGAGGAGGTAAAACTTGACTTGTTGAGCTATTAATGGAATTATGTGGCATTCCTTGCATAGGTGGCAGACCATTAGGAATCGAAGACAAGGAAGGTGCCAAACCAGCTGAGCTCGGCATTCCACCTGCAGATATGCTATTTTGCAGATTTTGTTGGAGCATTGGTTGTTGTGGTTGAGGTTGCCCAGTCAGTGGGAGATTATTTGCAGATGCTTGCTGTTGATTTCTAATCTGTGGTCGTAACATCATACCTCCAGGATCCAGAGGCCGCTGGTTGTTACCAGGAGAACTACCCGGAAAATGATTCGAAGGTCCATTAGCTTTTGATTCTAATGATAGCATCTTGAGAGATATTCTCCGTAGATAGTCTTGCTGACTTATAGCGACTGTATAAATCTTCTCCTCAAACCGCAAAGCAATTTTTTTCAGTTCATTCATTCCATCTGCACCCGTCTGTGGCAAGTGTCTCTGAAGAGTGTCCATTATCTTATTGACGATCTTCTGCCTGGATTCCTCATTCCTCCAGTTGTTGGTCTCCATGGCGCTCTGCCGGTTTGGTAAACGACGAGAAAGGAGTGTTGTGCAGAGGATTTGGGGCGAGGGTGTGTGGCTTTTACCAATATTATACAGAAAGAAAACGGATTGAGTGACAGCCAAGGTCACGACG

Fln Alignment:

Contig7820___KMDEQSAMQHMPMH-YRATPYPNAQLQPNIAHGAFQQPSIHGHPHALSSHHNQLPYXXXXXXXXXXXXXXXXXQIEVFWANQMQEIEQAVDFRNHSLPLARIKKIMKSDDENVRMISAEAPVVFAKACEMFINELTLRAWIHTEENKRRTLQKNDIAAAIARTDIFDFLIDIVPRDELKED
Q8LCG7______________QQQQQGVMDYVPPHAYQSGPVNAA------SHMAFQQAH-HFHHHHQQQQQQQL---------------------QMFWANQMQEIEHTTDFKNHTLPLARIKKIMKAD-EDVRMISAEAPVIFAKACEMFILELTLRAWIHTEENKRRTLQKNDIAAAISRTDVFDFLVDIIPRDELKEE

SNPs (tot: 82)

Position	A %	C %	G %	T %	Probability
80		80	20		0.995493
85	20	80			0.995493
86	80	20			0.995493
88	80			20	0.995493
89	80			20	0.995493
90		80	20		0.995493
91	80		20		0.995493
94		80	20		0.995493
97		20		80	0.995493
98	20			80	0.995493
102	20			80	0.995493
113	80			20	0.995493
116		20	80		0.995493
117		80		20	0.995493
124	80	20			0.995493
208	20			80	0.995493
327	33		66		0.997452
478		33		66	0.997452
585		80		20	0.995493
631			12	87	0.992554
632		87		12	0.992554
633	87	12			0.992554
641	87		12		0.992554
678		12		87	0.992554
786	80		20		0.995493
801	80		20		0.995493
834		80	20		0.995493
850		83	16		0.994512
851	83			16	0.994512
853	16	83			0.994512
855	83	16			0.994512
857		83		16	0.994512
863	83			16	0.994512
865			83	16	0.994512
867	16			83	0.994512
868	83	16			0.994512
870		16	83		0.994512
871	14	85			0.993533
872			14	85	0.993533
873	85			14	0.993533
875	85		14		0.993533
876	85			14	0.993533
877		85	14		0.993533
880		14	85		0.993533
883		85		14	0.993533
884	85		14		0.993533
885	85		14		0.993533
887	85			14	0.993533
888	71		14		0.984337
889		85		14	0.993533
891	14			85	0.993533
892		14	85		0.993533
937		20		80	0.995493
1639	33	66			0.997452
1641	33			66	0.997452
1648			33	66	0.997452
1672	33		66		0.997452
1699	66			33	0.997452
2213	87			12	0.992554
2355			66	33	0.997452
2410	88		11		0.923564
2419		11		88	0.923564
3066	90			10	0.90298
3067	90			10	0.90298
3072	88	11			0.923564
3073	87	12			0.992554
3075	85			14	0.993533
3085	80	20			0.995493
3086	80	20			0.995493
3087	80	20			0.995493
3088		20		80	0.995493
3089	20			80	0.995493
3091		25		75	0.996473
3092		25		75	0.996473
3169	66	33			0.997452
3174	66		33		0.997452
3175		66	33		0.997452
3176	66		33		0.997452
3178		66		33	0.997452
3179		66		33	0.997452
3186	66	33			0.997452
3189	66		33		0.997452

SSRs (tot: 7)

Start position	End position	Sequence	Length
704	717	CAG CAG CAG CAG CA	14
1156	1167	GCA GCA GCA GCA	12
1402	1416	GCA GCA GCA GCA GCA	15
1810	1821	ACA ACA ACA ACA	12
2112	2123	ATA ATA ATA ATA	12
2355	2370	CAG CAG CAG CAG CAG C	16
2752	2763	CTG CTG CTG CTG	12

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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