SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: biogeco3 v1.0

UniGene Name: biog3_v1.0_unigene10175

Length: 307 nt

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

UniGene Fasta (sense)

>biog3_v1.0_unigene10175
AATGTGATTGAAACTGCATGGGCAGGCGCTGCTTTCAACTTACTCTTTATATGCTTGCAAGCCATGTTCTTGGAGCTTGTTGGTATTTACTTGCATTGGAACGGCATGACACATGTCGGCGAAAGGCTTGTGCAAATAATGAAAGCCATTGTGAACTAGCATCTTTATATTGCAACGAGAAAAATACTTTGTCTAATCAATCCATAGAATTTCTAAATAACTATTGTAATACATCTGATACAAATGAAAATTTCAATTTTGGAATTTATGGTGATGCACTTGATTATGGAATCATTTCATCAAGAAA

Ace file of the UniGene biog3_v1.0_unigene10175 (antisense)

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Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene1576	3/3

Source	Descriptions	Term	Type	Identity
AutoFact	cyclic nucleotide-gated ion channel 1 [Arabidopsis thaliana] sp\|O65717.1\|CNGC1_ARATH RecName: Full=Cyclic nucleotide-gated ion channel 1; Short=AtCNGC1; AltName: Full=Cyclic nucleotide- and calmodulin-regulated ion channel 1 gb\|AAK43954.1\|AF370139_1 putat	-	-	60%
FL-Next	sp=Putative cyclic nucleotide-gated ion channel 9; Arabidopsis thaliana (Mouse-ear cress).	-	-	47%
Blast2go	cyclic nucleotide gated channel	-	-	75%

Source	GOs	Term	Type	Identity
Blast2go	calcium ion transport	GO:0006816	Biological Process	75%
Blast2go	response to cadmium ion	GO:0046686	Biological Process	75%
Blast2go	potassium ion transport	GO:0006813	Biological Process	75%
Blast2go	cyclic nucleotide binding	GO:0030551	Molecular Function	75%
Blast2go	inward rectifier potassium channel activity	GO:0005242	Molecular Function	75%
Blast2go	intracellular cyclic nucleotide activated cation channel activity	GO:0005221	Molecular Function	75%
Blast2go	calmodulin binding	GO:0005516	Molecular Function	75%
Blast2go	plasma membrane	GO:0005886	Cellular Component	75%

Source	InterPros	Term	Type	Identity
Sma3	IQ motif, EF-hand binding site	IPR000048	-	-
Sma3	Cyclic nucleotide-binding domain	IPR000595	-	-
Sma3	Protein kinase, catalytic domain	IPR000719	-	-
Sma3	Adenosine deaminase/editase	IPR002466	-	-
Sma3	Potassium channel, voltage-dependent, EAG/ELK/ERG	IPR003938	-	-
Sma3	Ion transport	IPR005821	-	-
Sma3	Ribonuclease H1, N-terminal	IPR011320	-	-
Sma3	RmlC-like jelly roll fold	IPR014710	-	-
Sma3	Protein kinase, ATP binding site	IPR017441	-	-
Sma3		IPR017442	-	-
Sma3	Cyclic nucleotide-binding, conserved site	IPR018488	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q9M0A4

Fln msg: Unexpected stop codon in the beginning of your sequence, Distance to subject end: 356 aas, your sequence is shorter than subject: 101 - 733

Fln protein: CD*NCMGRRCFQLTLYMLASHVLGACWYLLALERHDTCRRKACANNESHCELASLYCNEKNTLSNQSIEFLNNYCNTSDTNENFNFGIYGDALDYGIISSR

Protein Length: 102

Fln nts: AATGTGATTGAAACTGCATGGGCAGGCGCTGCTTTCAACTTACTCTTTATATGCTTGCAAGCCATGTTCTTGGAGCTTGTTGGTATTTACTTGCATTGGAACGGCATGACACATGTCGGCGAAAGGCTTGTGCAAATAATGAAAGCCATTGTGAACTAGCATCTTTATATTGCAACGAGAAAAATACTTTGTCTAATCAATCCATAGAATTTCTAAATAACTATTGTAATACATCTGATACAAATGAAAATTTCAATTTTGGAATTTATGGTGATGCACTTGATTATGGAATCATTTCATCAAGAAA

Fln Alignment:

Contig10175___FQLTLYMLASHVLGACWYLLALERHDTCRRKACANNESHCELASLYC-NEKN------TLSNQSIEFLNNYCNTSDTNENFNFGIYGDALDYGIISSR
Q9M0A4__________________YYLLLYMLASHIVGAIWYLLALERYNGCWTKVCSNSSLDCHRNFLFCGNEKMDGYAAWTTIKDSVLQLNCPVNTTD-NPPFDFGIYLRALSSGIVSSK

SNPs (tot: 4)

Position	A %	C %	T %	Probability
128	25		75	0.996473
129		25	75	0.996473
130	25	75		0.996473
132		75	25	0.996473

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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