00
00
Report an error
Primary links
Genome Tools
BLAST/BLAT
Gene List
GBrowse
GBrowse Synteny
JBrowse
Random List
Sequence Search
Expression Tools
exNet
Analysis Tools
ComPlEx
Enrichment
Galaxy
FTP
About us
Citation
Contact Us
PlantGenIE Team
Help
BLAST/BLAT
Load example:
Select BLAST:
BLASTALL
?
BLAST program:
BLASTN - nucleotide query to nucleotide db
BLASTP - protein query to protein db
TBLASTN - protein query to translated (6 frames) nt db
TBLASTX - transl. (6 frames) nucl. query to transl (6) nt db
BLASTX - translated (6 frames) nucl. query to protein db
?
Query sequence:
?
Upload File:
?
Select Blast DB:
A.thaliana genome
A.thaliana CDS
A.thaliana transcript
Athaliana protein
Athaliana protein
?
+ Advance Search Parameters
?
Scoring matrix:
BLOSUM62
PAM30
PAM70
BLOSUM80
BLOSUM45
Filtering:
Low complexity
Lower-case letters
E-value cutoff:
1e-3
1e-30
1e-10
1e-5
0.1
0
10
Advanced Options:
ungapped
megablast
Query genetic code:
Standard
Vertebrate Mitochondrial
Yeast Mitochondrial
Mold, Protozoan, and Coelocoel Mitochondrial
Invertebrate Mitochondrial
Ciliate Nuclear
Echinoderm Mitochondrial
Euplotid Nuclear
Bacterial
Alternative Yeast Nuclear
Ascidian Mitochondrial
Flatworm Mitochondrial
Blepharisma Macronuclear
DB genetic code:
Standard
Vertebrate Mitochondrial
Yeast Mitochondrial
Mold, Protozoan, and Coelocoel Mitochondrial
Invertebrate Mitochondrial
Ciliate Nuclear
Echinoderm Mitochondrial
Euplotid Nuclear
Bacterial
Alternative Yeast Nuclear
Ascidian Mitochondrial
Flatworm Mitochondrial
Blepharisma Macronuclear
Frame shift penalty:
Number of results:
10
100
1
50
BLAST
Select BLAST/BLAT:
BLASTALL
BLAT
?
Query sequence:
?
Select Blat DB:
Ptrichocarpa_210 -unmasked
Ptrichocarpa_210 -masked
Ptrichocarpa_210 Transcripts
Ptrichocarpa_210 CDS
?
Sort By:
query,score
query,start
chrom,score
chrom,start
score
?
Output:
hyperlink
psl
psl no header
?
BLAT
Login
| © 2019
PlantGenIE.org
. |
MIT License
Test popups
Test popups
Test popups
GeneList
view active genelist (
)
here
.
genelist name
genes
rename
delete
add empty genelist
/
save current list
/
cancel
Analysis
Tools with GeneList
exHeatmap
eFP
exNet
ComPlEx
Enrichment
Chromosome Diagram
Sequence Search
<
