► Step1: Input an RNA Sequence
(fasta format, up to 10k bps)
► Step 2: Select RNA
Motifs
• Transcriptional motifs:
|
TRANSFAC TFBS (
,
score ≥
score ≥ default matrix value)
Rho-independent
Terminator
|
• Pre-mRNA
motifs: |
Splicing
Site (species:
)
Splicing
Regulatory Motif (
)
Polyadenylation
Site |
• Translational motifs: |
Ribosome
Binding Site |
• UTR motifs: |
UTRsite Motifs |
• mRNA degradation
elements: |
AU-rich
Elements |
• RNA editing sites: |
C-to-U Editing Sites |
• Riboswitches: |
RiboSW |
• RNA cis-regulatory elements: |
ERPIN
Rfam cis-reg families |
• RNA structural
patterns: |
Long
Stem (stem_length ≥
) |
• Functional
RNA
sequences: |
BLAST
fRNAdb (similarity ≥
or match_length ≥
) |
• RNA-RNA
interaction region: |
miRNA
Target Sites (
, score ≥
&
free_energy ≤
)
ncRNA Hybridization Sites (
, length ≥
&
free_energy ≤
) |
• User defined motif: |
RNAMotif descriptor
|
• Miscellaneous: |
GC-content
Ratio (window_size:
)
RNA
Accessibility (max_pair_distance:
,
consecutive_unpair_size:
)
Open Reading Frame Prediction :(Start Codon
AUG
AUG
+ GUG + UUG ) |
• Ouput settings: |
Draw Position Lines on the Map (interval length:
)
Map Width:
pixel |
|
|
