SustainPineDB

All assemblies
Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene23003

Length: 229 nt

Origin of reads: Uagpf v2

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

UniGene Fasta (sense)

>sp_v2.0_unigene23003
CGTCGTGACCTTGGCTGTCACTCAGCATTTGCAGCAGCTAAATTTGCTGATGCTTGCCTCCATGGTTTGCGGGGTGACGTCGTGACCTTGGCTGTCACTCATTGTTGCATCGGAGGTAACTGAACTACCCTTTTTTGCTTCAAAAGTAAGACTGGGTCGTGCTGGTATCGAAGAAGTTTACCCTTTAGGACCATTGAGTGCATATGAAAGATCTGGGTTAGAGAAATTG

Ace file of the UniGene sp_v2.0_unigene23003 (antisense)

If you push the Download ace button, you will download an ace file of this UniGene.

To watch this ACE file you will need an ACE viewer program as Tablet:

Go to the Tablet ACE viewer Web

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Malate dehydrogenase n=1 Tax=Sequoia sempervirens RepID=E5FXB1_SEQSE	-	-	2.0e-13	88%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	100%
Blast2go	glyoxysomal malate dehydrogenase	-	-	1.04621e-20	92%

Source	InterPros	Term	Type	Identity
Sma3	Major intrinsic protein	IPR000425	-	-
Sma3	Lactate/malate dehydrogenase, N-terminal	IPR001236	-	-
Sma3	Malate dehydrogenase, active site	IPR001252	-	-
Sma3	L-lactate/malate dehydrogenase	IPR001557	-	-
Sma3	Malate dehydrogenase, type 1	IPR010097	-	-
Sma3	Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal	IPR015955	-	-
Sma3	NAD(P)-binding domain	IPR016040	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: A9NVU6

Fln msg: Unexpected stop codon in the beginning of your sequence, Distance to subject end: 17 aas, your sequence is shorter than subject: 76 - 355

Fln protein: VVTLAVTQHLQQLNLLMLASMVCGVTS*PWLSLIVASEVTELPFFASKVRLGRAGIEEVYPLGPLSAYERSGLEKL

Protein Length: 77

Fln nts: CGTCGTGACCTTGGCTGTCACTCAGCATTTGCAGCAGCTAAATTTGCTGATGCTTGCCTCCATGGTTTGCGGGGTGACGTCGTGACCTTGGCTGTCACTCATTGTTGCATCGGAGGTAACTGAACTACCCTTTTTTGCTTCAAAAGTAAGACTGGGTCGTGCTGGTATCGAAGAAGTTTACCCTTTAGGACCATTGAGTGCATATGAAAGATCTGGGTTAGAGAAATTG

Fln Alignment:

Contig23003___VASEVTELPFFASKVRLGRAGIEEVYPLGPLSAYERSGLEKL
A9NVU6_______________VASEVTELPFFASKVRLGRAGIEEVYPLGPLSAYERSGLEKL

SNPs (tot: 10)

Position	A %	C %	G %	T %	Probability
129	25			75	0.996473
133		25		75	0.996473
138			75	25	0.996473
140		75	25		0.996473
141	75			25	0.996473
143		25	75		0.996473
144	25		75		0.996473
145	25			75	0.996473
146		75		25	0.996473
149		33	66		0.997452

Back

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