SustainPineDB

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

Assembly Name: biogeco3 v1.0

UniGene Name: biog3_v1.0_unigene730

Length: 367 nt

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

UniGene Fasta (sense)

>biog3_v1.0_unigene730
AATGTATTGCTGAGATTCGTGGGTTCAAGATAATTTCAGAACAGGGCATTGCATCAGGAATTAGGCGAATTGATGCTGTTGCCGGGGAAGGTTTTATCAACTATACCAACTCTCGAGATAATATTGTGAAACAATTGTGCTCTACTTTCAAGGTAAAGGGCGAAGATATACCTACAAGAGTAGATAACCTGCTGGAAGAACTGAGAACAGTGAGAAATGAGGTTACAGCATTACGATCAAAAATAGCCACAATAAAAGCATCAGCAATTGCAGATACAGCTTCTGTTGTTGGAACTGCTAAAGCTAGGGTGGTTGTAGCGAAACATGGATGATCTTGATGCGGAGTCTCTCAAAGTAGCTGCCGAAC

Ace file of the UniGene biog3_v1.0_unigene730 (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

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene10256	3/3

Source	Descriptions	Term	Type	Identity
AutoFact	Probable alanyl-tRNA synthetase, chloroplastic n=1 Tax=Populus trichocarpa RepID=SYAP_POPTR	-	-	68%
FL-Next	sp=Probable alanyl-tRNA synthetase, chloroplastic; subsp. trichocarpa).	-	-	71%
Blast2go	alanyl-trna synthetase	-	-	84%

Source	ECs	Term	Type	e value	Identity
Blast2go	Alanine--tRNA ligase.	EC:6.1.1.7	-	0.0	84%

Source	KEGGs	Term	Type	e value	Identity
Blast2go	Aminoacyl-tRNA biosynthesis	00970		0.0	84%

Source	GOs	Term	Type	Identity
Blast2go	alanyl-tRNA aminoacylation	GO:0006419	Biological Process	84%
Blast2go	embryo development ending in seed dormancy	GO:0009793	Biological Process	84%
Blast2go	alanine-tRNA ligase activity	GO:0004813	Molecular Function	84%
Blast2go	metal ion binding	GO:0046872	Molecular Function	84%
Blast2go	ATP binding	GO:0005524	Molecular Function	84%
Blast2go	tRNA binding	GO:0000049	Molecular Function	84%
Blast2go	mitochondrion	GO:0005739	Cellular Component	84%
Blast2go	chloroplast stroma	GO:0009570	Cellular Component	84%
Blast2go	membrane	GO:0016020	Cellular Component	84%

Source	InterPros	Term	Type	Identity
Sma3	Alanyl-tRNA synthetase, class IIc	IPR002318	-	-
Sma3	Phosphoesterase, DHHA1	IPR003156	-	-
Sma3	Threonyl/alanyl tRNA synthetase, SAD	IPR012947	-	-
Sma3	Alanyl-tRNA synthetase, class IIc, N-terminal	IPR018164	-	-
Sma3	Alanyl-tRNA synthetase, class IIc, core domain	IPR018165	-	-
Sma3	EF-Hand 1, calcium-binding site	IPR018247	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: B9HQZ6

Fln msg: Unexpected STOP codon at 3' end. Distance to subject end: 91 aas, your sequence is shorter than subject: 110 - 994

Fln protein: CIAEIRGFKIISEQGIASGIRRIDAVAGEGFINYTNSRDNIVKQLCSTFKVKGEDIPTRVDNLLEELRTVRNEVTALRSKIATIKASAIADTASVVGTAKARVVVAKHG*

Protein Length: 111

Fln nts: AATGTATTGCTGAGATTCGTGGGTTCAAGATAATTTCAGAACAGGGCATTGCATCAGGAATTAGGCGAATTGATGCTGTTGCCGGGGAAGGTTTTATCAACTATACCAACTCTCGAGATAATATTGTGAAACAATTGTGCTCTACTTTCAAGGTAAAGGGCGAAGATATACCTACAAGAGTAGATAACCTGCTGGAAGAACTGAGAACAGTGAGAAATGAGGTTACAGCATTACGATCAAAAATAGCCACAATAAAAGCATCAGCAATTGCAGATACAGCTTCTGTTGTTGGAACTGCTAAAGCTAGGGTGGTTGTAGCGAAACATGGATGATCTTGATGCGGAGTCTCTCAAAGTAGCTGCCGAAC

Fln Alignment:

Contig730___AEIRGFKIISEQGIASGIRRIDAVAGEGFINYTNSRDNIVKQLCSTFKVKGEDIPTRVDNLLEELRTVRNEVTALRXXXXXXXXXXXXXXXSVVGTAKA-RVVV
B9HQZ6________________SEIRAFKIISEQGIASGIRRIEAVAGEAFIEYINARDSQMKLLCSTLKVKAEEVTTRVDNLLEELRTVRNEVSALRAKAAVYKASMIASKAFSVGTSKTIRVLV

SNPs (tot: 2)

Position	A %	C %	G %	T %	Probability
226	25		75		0.996473
227	75			25	0.996473

Back

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