SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene128305

Length: 572 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene128305
CGAGTACATGGGGATCTACCTACAGCTATTATTTTGACATCCTGACACCCTGTGTGTCCGGGTACAGTGAACTGGACTGGCTGGAAATTCAAATTCACAGTAAATTCACTTCAATCTCGGCTCCGTTCCATAACCACAATTCAAATTGCAGTCAAGGTTGAGTGTACCATTCCAAAGATGATGGCACAATTGCATCATATGTGGGCTATAGAGTGCAGCATGACAATGCTCGAGGACCTATGAAGGGAGGAATACGCTACCACCCGGAGGTTGATCCAGATGAGGTGAATGCCTTAGCTCAATTAATGACATGGAAGACTGCTGTGGCAAACATTCCATATGGAGGTGCAAAGGGTGGCATTGGATGTTCACCATCCAGTTTGAGTAAAACTGAGTTAGAACGTCTTACACGTGTTTTTACTCAGAAGATTCATCATTTGATTGGAATCAACATGGATATTCCAGCGCCTGACATGGGAACTAACTCTCAGACAATGGCATGGATTCTAGATGAATATTCCAAGTTTCACGGTCATTCTCCTGCAGTTGTTACTGGAAAACCTCTTGATCTT

Ace file of the UniGene sp_v3.0_unigene128305 (antisense)

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	glutamate dehydrogenase 2 [Arabidopsis thaliana] gb\|AAL66950.1\| glutamate dehydrogenase 2 [Arabidopsis thaliana]	-	-	0.0	79%
FL-Next	sp=Glutamate dehydrogenase; Pinus pinaster (Maritime pine).	-	-	0.0	79%
Sma3	Glutamate dehydrogenase	-	-	2.933e-28	-

Source	ECs	Term	Type	e value	Identity
Sma3	Glutamate dehydrogenase.	EC:1.4.1.2	-	1.247e-12	-

Source	KEGGs	Term	Type	e value	Identity
Sma3	Alanine, aspartate and glutamate metabolism	00250		1.247e-12	%
Sma3	Arginine and proline metabolism	00330		1.247e-12	%
Sma3	Nitrogen metabolism	00910		1.247e-12	%
Sma3	Metabolic pathways	01100		1.247e-12	%
Sma3	Glutamate dehydrogenase (NAD(P)(+)).	EC:1.4.1.3	-	3.243e-38	-

Source	KEGGs	Term	e value	Identity
Sma3	Alanine, aspartate and glutamate metabolism	00250	3.243e-38	%
Sma3	Arginine and proline metabolism	00330	3.243e-38	%
Sma3	D-Glutamine and D-glutamate metabolism	00471	3.243e-38	%
Sma3	Nitrogen metabolism	00910	3.243e-38	%
Sma3	Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid	01064	3.243e-38	%
Sma3	Metabolic pathways	01100	3.243e-38	%

Source	Gene names
Sma3	AT5G07440; At3g03910; At5g07440; BoGDH; CHLREDRAFT_137469; CHLREDRAFT_82916; F20H23.4; GDH; GDH1; GDH2; GDH3; GDHA; GDHB; GSH3; GSVIVT00014097001; GSVIVT00014101001; GSVIVT00014104001; GSVIVT00025474001; GdhA; LsGDH; OSJNBb0012J10.18; OSJNBb0038F03.5; OSJ

Source	GOs	Term	Type	Identity
Sma3	mitochondrion	GO:0005739	Cellular Component	-
Sma3	mitochondrial matrix	GO:0005759	Cellular Component	-
Sma3	plasma membrane	GO:0005886	Cellular Component	-
Sma3	glutamate dehydrogenase (NAD+) activity	GO:0004352	Molecular Function	-
Sma3	glutamate dehydrogenase [NAD(P)+] activity	GO:0004353	Molecular Function	-
Sma3	binding	GO:0005488	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	oxidoreductase activity	GO:0016491	Molecular Function	-
Sma3	oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor	GO:0016639	Molecular Function	-
Sma3	cellular amino acid metabolic process	GO:0006520	Biological Process	-
Sma3	response to salt stress	GO:0009651	Biological Process	-
Sma3	response to cadmium ion	GO:0046686	Biological Process	-
Sma3	oxidation-reduction process	GO:0055114	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Glutamate/phenylalanine/leucine/valine dehydrogenase	IPR006095	-	-
Sma3	Glutamate/phenylalanine/leucine/valine dehydrogenase, C-terminal	IPR006096	-	-
Sma3	Glutamate/phenylalanine/leucine/valine dehydrogenase, dimerisation domain	IPR006097	-	-
Sma3	Glutamate dehydrogenase	IPR014362	-	-
Sma3	NAD(P)-binding domain	IPR016040	-	-
Sma3	EF-Hand 1, calcium-binding site	IPR018247	-	-
Sma3	Formate C-acetyltransferase glycine radical, conserved site	IPR019777	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT5G07440.1	GDH2 glutamate dehydrogenase 2 chr5:2356153-2358012 FORWARD LENGTH=411	79%
RefSeq	Arabidopsis thaliana	NP_001119184.1	glutamate dehydrogenase 2 [Arabidopsis thaliana]	79%
RefSeq	Populus trichocarpa	XP_002321781.1	predicted protein [Populus trichocarpa]	78%

Full-Lengther Next Prediction

Fln status: Putative N-terminus

Fln database: coniferopsida.fasta

Fln subject: D9IXC9

Fln msg: Distance to subject end: 236 aas, W2: There is no M at the beginning, your sequence is shorter than subject: 190 - 411

Fln protein: STWGSTYSYYFDILTPCVSGYSELDWLEIQIHSKFTSISAPFHNHNSNCSQG*VYHSKDDGTIASYVGYRVQHDNARGPMKGGIRYHPEVDPDEVNALAQLMTWKTAVANIPYGGAKGGIGCSPSSLSKTELERLTRVFTQKIHHLIGINMDIPAPDMGTNSQTMAWILDEYSKFHGHSPAVVTGKPLDL

Protein Length: 191

Fln nts: CGAGTAC_-_ATGGGGATCTACCTACAGCTATTATTTTGACATCCTGACACCCTGTGTGTCCGGGTACAGTGAACTGGACTGGCTGGAAATTCAAATTCACAGTAAATTCACTTCAATCTCGGCTCCGTTCCATAACCACAATTCAAATTGCAGTCAAGGTTGAGTGTACCATTCCAAAGATGATGGCACAATTGCATCATATGTGGGCTATAGAGTGCAGCATGACAATGCTCGAGGACCTATGAAGGGAGGAATACGCTACCACCCGGAGGTTGATCCAGATGAGGTGAATGCCTTAGCTCAATTAATGACATGGAAGACTGCTGTGGCAAACATTCCATATGGAGGTGCAAAGGGTGGCATTGGATGTTCACCATCCAGTTTGAGTAAAACTGAGTTAGAACGTCTTACACGTGTTTTTACTCAGAAGATTCATCATTTGATTGGAATCAACATGGATATTCCAGCGCCTGACATGGGAACTAACTCTCAGACAATGGCATGGATTCTAGATGAATATTCCAAGTTTCACGGTCATTCTCCTGCAGTTGTTACTGGAAAACCTCTTGATCTT

Fln Alignment:

AllPine_a_rep_c76648___SISAPFHNHNSNCSQG*VYHSKDDGTIASYVGYRVQHDNARGPMKGGIRYHPEVDPDEVNALAQLMTWKTAVANIPYGGAKGGIGCSPSSLSKTELERLTRVFTQKIHHLIGINMDIPAPDMGTNSQTMAWILDEYSKFHGHSPAVVTGKPLDL
D9IXC9________________SLLIPFREIKVECTI-----PKDDGTLASYVGFRVQHDNARGPMKGGIRYHPEVDPDEVNALAQLMTWKSAVANIPYGGAKGGIGCDPRSLSFSELERLTRVFTQKIHDLIGVHIDVPAPDMGTNSQTMAWILDEYSKFHGYSPAIVTGKPVDL

SNPs (tot: 17)

Position	A %	C %	G %	T %	Probability
126	20			80	0.995493
128		80	20		0.995493
129		80		20	0.995493
291	14	85			0.993533
293		83		16	0.994512
390	33			66	0.997453
392		66		33	0.997453
393		66	33		0.997453
398			33	66	0.997471
400		33		66	0.997476
401	33			66	0.997476
403	33			66	0.997476
406	66			33	0.997458
407	66	33			0.997458
408	33			66	0.997453
409		33	66		0.997464
414	66		33		0.997452

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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