SustainPineDB

Assembly Name: biogeco3 v1.0

UniGene Name: biog3_v1.0_unigene4335

Length: 1677 nt

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

UniGene Fasta (sense)

Ace file of the UniGene biog3_v1.0_unigene4335 (antisense)

Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene3597	2/63
SustainPine v2.0	sp_v2.0_unigene6558	60/63
SustainPine v2.0	sp_v2.0_unigene14360	1/63

Source	Descriptions	Term	Type	Identity
AutoFact	U2 snrnp auxiliary factor, small subunit, putative n=1 Tax=Ricinus communis RepID=B9SRG2_RICCO	-	-	78%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	89%
Blast2go	u2 snrnp auxiliary small	-	-	92%

Source	GOs	Term	Type	Identity
Blast2go	photoperiodism, flowering	GO:0048573	Biological Process	92%
Blast2go	RNA binding	GO:0003723	Molecular Function	92%
Blast2go	zinc ion binding	GO:0008270	Molecular Function	92%
Blast2go	nucleotide binding	GO:0000166	Molecular Function	92%
Blast2go	nucleus	GO:0005634	Cellular Component	92%

Source	InterPros	Term	Type	Identity
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	U2 auxiliary factor small subunit	IPR009145	-	-
Sma3	Zinc finger, CCCH-type	IPR000571	-	-

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: D5ABW9

Fln msg:

Fln protein: MAEHLASIFGTEKDRVNCPFYFKIGVCRHGDRCSRLHTRPSISPTLLLSNMYQRPDMITPGMDPQGHALDPRKIQEHFEDFYEDLFEELGKYGAIESLNVCDNLADHMVGNVYVQFREEEHAAAALQALTGRFYAERAIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKKISRELRRQLFGRYRQYGHGYSRSQSRSPSPRLSVERHRGYDDRPRGGRGYDDRPYGGRGYDNRSHGGRGFGRRNGRGYPSYHDDRHGRRPRSRSPGYRRGRSRSRSHSPRRSRNFVREGSAERRAKIEQWNKEREQAAASSTANQSIQNGGVYSDQPDDGF*

Protein Length: 338

Fln nts: CAACCGAACGTCGGGTGTCGAGTAACAATAAGAAAAAGTGTAGGCGCTGGAGGTTACACAGTACGAAGTTTGAGTCCACAGGGTGTGAAGCCGTCCGCTCACTCCACAAGTTGGAAGGAATTCCAACTGTAATCGGCTCCATCACAGGTTGTGGAAGTGCTGATAATCTGTGAAAGTCTGAATCTAGTAGCTATTTGAAGCC_-_ATGGCAGAACATTTAGCTTCAATCTTTGGTACTGAGAAAGATAGAGTAAATTGCCCTTTCTACTTCAAAATTGGGGTTTGCAGGCATGGGGATCGCTGTTCACGACTTCACACAAGGCCTAGTATCAGCCCTACACTTCTTCTATCTAACATGTATCAAAGGCCAGATATGATTACTCCAGGGATGGATCCTCAAGGTCATGCTCTGGACCCTCGAAAGATCCAGGAACACTTTGAGGATTTCTATGAAGATTTATTTGAAGAGCTCGGCAAGTATGGAGCAATAGAAAGCTTGAATGTTTGTGACAACTTGGCTGATCATATGGTTGGCAATGTTTATGTACAGTTCAGGGAGGAAGAACATGCTGCTGCTGCATTGCAGGCTTTGACTGGTAGATTTTATGCTGAGCGAGCAATCATAGTGGATTTCTCTCCTGTTACTGACTTCCGCGAAGCAACATGTAGGCAATATGAAGAGAATACTTGCAACCGTGGTGGCTACTGTAACTTTATGCACCTCAAGAAGATCAGCAGAGAGCTGAGGCGGCAATTATTTGGAAGGTATAGACAATATGGCCATGGTTACAGTAGAAGCCAGAGTCGAAGTCCTAGCCCTCGACTGTCTGTAGAAAGACACCGTGGTTATGATGATCGTCCTCGTGGTGGCCGTGGTTATGATGACCGTCCCTATGGTGGTCGTGGCTATGATAACCGTTCCCATGGTGGTCGTGGTTTTGGCAGGAGAAATGGGAGGGGTTATCCTAGTTATCATGATGATAGACATGGACGAAGGCCACGGAGCCGCAGTCCAGGTTACAGACGAGGTCGGAGCAGGAGCAGGAGCCACAGCCCTAGGAGGAGCAGAAATTTTGTGAGAGAAGGCAGTGCTGAGAGGAGAGCTAAAATTGAACAGTGGAATAAAGAAAGAGAACAAGCAGCAGCATCTTCCACTGCGAACCAGTCCATCCAAAATGGAGGGGTGTATTCGGATCAACCTGACGACGGCTTTTAG___CTTATGGATGATCACTGCATTTTTGGTGCATGTGCTGCTGCTTCAATGTTACTGGTGTATGGAGTTTTCGAAATTTCTGGAGATGCTAAAGCTGTTTGTGCAGGAAGAAAATTATGGAGACTGCAATGGTCTCCATTATGCAGGGAGAAAGGAAGGCTACATGACTCTGTTTCAGGTTCATCTTGTGCAGGCACAGGTCTTTTGTCTAAAAAATTAGAGCTATATTATTTGTGCGGGCACTCTGGATTTTGAACCGTGGTTCTTTATAAAAGGTGTTTTGCAGGTACATGGTTTAAAATGGTTCTAGATTTGATGGTAACAGATCTAACAGTATTCATTGGCTGGATTCTCTATATTTGGAATTTAAGTACCTGTATTCTTCAGGATTTATTTTGATACAGAATTGAATGGTAACGGATCTAACAGTATGCAGTGGTTGGATTCTCTTTGTTTGGAAGTACATT

Fln Alignment:

Contig4335___MAEHLASIFGTEKDRVNCPFYFKIGVCRHGDRCSRLHTRPSISPTLLLSNMYQRPDMITPGMDPQGHALDPRKIQXXXXXXXXXXXXXLGKYGAIESLNVCDNLADHMVGNVYVQFREEEHXXXXXXXLTGRFYAERAIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKKISRELRRQLFGRYRQYGHGYXXXXXXXXXXXXSVERHXXXXXXXXXXXXXXXXXXXXXXXDNRSHXXXXXXXXXXXGYPSYHDDXXXXXXXXXXXXXXXXXXXXXXXXXXXXRNFVREGSAERRAKIEQWNKEREQAAASSTANQSIQNGGVYSDQPDDGF
D5ABW9_________________MAEHLASIFGTEKDRVNCPFYFKIGACRHGDRCSRLHTRPSISPTILLSNMYQRPDMITPGMDPQGHALDPQKIQEHFEDFYEDLFEELGKYGEIESLNVCDNLADHMVGNVYVQFREEEHAAAALQALTGRFYAGRAIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKKISRELRRQLFGRYRRYGHGYSRSRSRSLSPGLSVERHRGYDDRPRGGRGYDDRPYGGRGYDDRPHGGRGFGRKNERDYPGYHDDRHGRRPRSRSPGHRQGRSRSHSPKRNRSP--VREGSAERRAKIEQWNREREQAAASSDANQSMQNGGAHSYQPGYGY

SNPs (tot: 53)

Position	A %	C %	G %	T %	Probability
90	66		33		0.997452
91		66		33	0.997452
127	66	33			0.997452
277	14		85		0.993533
279		85		14	0.993533
280	85		14		0.993533
306	14		85		0.993533
307		14		85	0.993533
309			85	14	0.993533
310		85		14	0.993533
322	14	85			0.993533
323	14	85			0.993533
326		85		14	0.993533
350	14	85			0.993533
353	85		14		0.993533
480	11	88			0.923564
491	11		88		0.923564
492	88	11			0.923564
495	88			11	0.923564
530	12		87		0.992554
531	87	12			0.992554
533			87	12	0.992554
534	87			12	0.992554
693	11	88			0.923564
736	14	85			0.993533
739			85	14	0.993533
831		87		12	0.992554
847	14			85	0.993533
848		14		85	0.993533
849	14	85			0.993533
851	87			12	0.992554
900	12		87		0.992554
906	87			12	0.992554
916	12	87			0.992554
917		87		12	0.992554
918			12	87	0.992554
941	11			88	0.923564
942	11	88			0.923564
944		88	11		0.923564
953	11			88	0.923564
954		11		88	0.923564
955	11	88			0.923564
969	85			14	0.993533
1302	10			90	0.90298
1392			85	14	0.993533
1432	25			75	0.996473
1433		75		25	0.996473
1495		20	60		0.99255
1498			20	80	0.995493
1499		75		25	0.996473
1638	33			66	0.997452
1640	33	66			0.997452
1641		66		33	0.997452

SSRs (tot: 1)

Start position	End position	Sequence	Length
1102	1113	GCA GCA GCA GCA	12

Back

Biología Molecular y Biotecnología de Plantas, Facultad de Ciencias y Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071 Málaga, Spain