SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene2942

Length: 892 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene2942 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	STYLOSA protein n=1 Tax=Antirrhinum majus RepID=Q6H976_ANTMA	-	-	0.0	53%
FL-Next	sp=Transcriptional corepressor LEUNIG; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	54%
Sma3	Transcriptional corepressor LEUNIG	-	-	4.872e-08	-

Source	Gene names
Sma3	At4g32551; GSVIVT00016815001; GSVIVT00032588001; L23H3.30; LUG; OJ1293_E04.10; OSIGBa0157K09-H0214G12.8; OSJNBa0053L11.32; OSJNBa0090K04.16-1; OSJNBa0090K04.17; OSJNBb0065L13.11; Os01g0177100; Os01g0607400; Os01g0607600; Os02g0813800; Os04g0510200; OsI_00

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	single-stranded DNA binding	GO:0003697	Molecular Function	-
Sma3	transcription regulator activity	GO:0030528	Molecular Function	-
Sma3	protein heterodimerization activity	GO:0046982	Molecular Function	-
Sma3	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	-
Sma3	flower development	GO:0009908	Biological Process	-
Sma3		GO:0016481	Biological Process	-
Sma3	cell differentiation	GO:0030154	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domain	IPR000194	-	-
Sma3	WD40 repeat	IPR001680	-	-
Sma3	LisH dimerisation motif	IPR006594	-	-
Sma3	Single-stranded DNA-binding protein, SSDP	IPR007591	-	-
Sma3	LisH dimerisation motif, subgroup	IPR013720	-	-
Sma3	WD40/YVTN repeat-like-containing domain	IPR015943	-	-
Sma3	WD40-repeat-containing domain	IPR017986	-	-
Sma3	WD40 repeat, conserved site	IPR019775	-	-
Sma3		IPR019782	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT4G32551.2	-	51%
RefSeq	Arabidopsis thaliana	NP_567896.1	transcriptional corepressor LEUNIG [Arabidopsis thaliana]	54%
RefSeq	Populus trichocarpa	XP_002324837.1	predicted protein [Populus trichocarpa]	57%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q9FUY2

Fln msg: Distance to subject end: 473 aas, your sequence is shorter than subject: 296 - 931

Fln protein: QQQQQQQQQLGRDGGHLLNGSANGLVGNDSLIRQNQGTANAMATKMYEERLKLPHQRDSMDDGSMKRFGDNVGQLLDANQTNILKSATTPGQPSGQVLHNTAGNMAAALQQVQARNQQLPVATQDIKTEMNSVLSQRSGTSDASLFGVPGAGHSKPNLLSPGANQGGNNLPLKGWPLTGLDQLRPGLLATQKSFIQSPQQYHQIQMLTPQQQQLLLQAQAQGNLTSAPCSNFGDMESRRLRMLLSNRNAVAGKDGQTNAVGDMTQNVGSPLPRPEADMILKMKIAQIQQQQQQQQQ

Protein Length: 297

Fln nts: CACAGCAGCAGCAGCAGCAACAACAACAACTGGGCAGAGATGGGGGACATCTTTTAAATGGTTCTGCCAATGGATTAGTTGGTAATGATTCTCTTATCCGACAAAACCAGGGGACAGCAAATGCCATGGCAACAAAGATGTATGAGGAACGTCTAAAGTTACCGCATCAGAGAGATTCCATGGACGATGGATCGATGAAGAGGTTTGGAGACAATGTTGGTCAGCTACTGGATGCAAACCAAACAAATATACTGAAGTCAGCAACCACACCTGGGCAGCCTTCGGGGCAAGTTTTACATAATACAGCAGGTAATATGGCTGCTGCTCTTCAGCAGGTTCAGGCTCGTAACCAACAACTTCCTGTGGCCACACAGGACATCAAAACCGAGATGAACTCGGTACTAAGTCAGAGATCTGGCACTTCAGATGCTTCATTATTTGGAGTACCTGGAGCTGGCCATTCAAAACCAAATTTATTAAGCCCAGGTGCAAATCAAGGAGGAAATAACCTACCTTTGAAGGGCTGGCCCCTGACAGGTCTTGACCAACTTCGACCAGGACTTCTAGCAACACAGAAATCTTTCATTCAATCTCCACAGCAATATCATCAGATTCAGATGTTAACTCCGCAGCAACAACAGCTTTTGCTCCAAGCACAAGCCCAAGGAAATCTGACGTCTGCACCATGCTCTAATTTTGGTGATATGGAAAGCAGAAGACTTCGGATGCTTCTGAGTAACAGGAATGCTGTTGCAGGCAAAGATGGCCAAACTAATGCTGTTGGTGACATGACCCAGAATGTTGGGTCTCCACTGCCACGACCTGAAGCAGACATGATATTGAAGATGAAAATAGCTCAAATCCAACAGCAGCAACAGCAACAGCAGCAGCA

Fln Alignment:

Contig2942___RDGGHLLNGSANGLVGNDS--LIRQNQGTANAMATKMYEERLKLPHQRDSMDDGSMKRFGDNVGQLLDANQTNILKSATTPGQPSGQVLHNTAGNMAAALQQVQARNQQLPVATQDIKTEMNSVLSQRSGTSDASLFGVPGAGHSKPNLLSPGANQGGNNLPLKGWPLTGLDQLRPGLLATQKSFIQSPQQYHQIQMLTPXXXXXXXXXXXQGNLTSAPCSNFGDMEXXXXXXXXXXXNAVAGKDGQTNAVGDMTQNVGSP-------LPRPEADMILKMKIA
Q9FUY2______________RDGSHLANGSANGLVGNNSEPVMRQNPGSGSSLASKAYEERVKMPTQRESLDEAAMKRFGDNVGQLLDPSHASILKSAAASGQPAGQVLHSTSGGMS---PQVQTRNQQLPGSAVDIKSEINPVLTPRTAVPEGSLIGI------------PGSNQGSNNLTLKGWPLTGFDQLRSGLLQQQKPFMQS-QSFHQLNMLTPQHQQQLMLAQQ--NLNSQSVSE----ENRRLKMLLNNRSMTLGKDGLGSSVGDVLPNVGSSLQPGGSLLPRGDTDMLLKLKMA

SNPs (tot: 18)

Position	A %	C %	G %	T %	Probability
262	16		83		0.994512
301	14		85		0.993533
508	12	87			0.992554
509		12	87		0.992554
510	12		87		0.992554
582	14			85	0.993533
587	14			85	0.993533
590			14	85	0.993533
594	14			85	0.993533
600	85		14		0.993533
601	85	14			0.993533
602	85			14	0.993533
603	85		14		0.993533
752	71		28		1.0
801	83	16			0.994512
802		16	83		0.994512
804			83	16	0.994512
827	25		75		0.996473

SSRs (tot: 2)

Start position	End position	Sequence	Length
863	875	GTT GTT GTT GTT G	13
874	890	TGC TGC TGC TGC TGC TG	17

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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