sfmap.technion.ac.il

SFmap - Motifs Analysis and Prediction of Splicing Factors

Human Feb. 2009 (hg19). Human Mar. 2006 (hg18). Sequence (In FASTA format). (View example). Genomic coordinates ( chromosome:start-end:strand. Paste your sequences/coordinates here:. Sequence length: 21-5,000 bp; Max. number of entries: 5,000). Note that the input size limitations have changed in version 1.8. Or, upload a file:. Motifs selection (optional, default: all motifs). To select specific motifs from the list. Enter new motifs (optional):. 4-10 bp long, IUPAC symbols only).

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SFmap - Motifs Analysis and Prediction of Splicing Factors | sfmap.technion.ac.il Reviews

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Human Feb. 2009 (hg19). Human Mar. 2006 (hg18). Sequence (In FASTA format). (View example). Genomic coordinates ( chromosome:start-end:strand. Paste your sequences/coordinates here:. Sequence length: 21-5,000 bp; Max. number of entries: 5,000). Note that the input size limitations have changed in version 1.8. Or, upload a file:. Motifs selection (optional, default: all motifs). To select specific motifs from the list. Enter new motifs (optional):. 4-10 bp long, IUPAC symbols only).

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4 mouse mm9

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SFmap - Motifs Analysis and Prediction of Splicing Factors | sfmap.technion.ac.il Reviews

https://sfmap.technion.ac.il

Human Feb. 2009 (hg19). Human Mar. 2006 (hg18). Sequence (In FASTA format). (View example). Genomic coordinates ( chromosome:start-end:strand. Paste your sequences/coordinates here:. Sequence length: 21-5,000 bp; Max. number of entries: 5,000). Note that the input size limitations have changed in version 1.8. Or, upload a file:. Motifs selection (optional, default: all motifs). To select specific motifs from the list. Enter new motifs (optional):. 4-10 bp long, IUPAC symbols only).

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sfmap.technion.ac.il

1

SFmap Motifs List

http://sfmap.technion.ac.il/SF_list.html

Gaagaa, ghvvganr, aaguguu. Gukgykg, gugkau, gggug. The splicing factors and their related motifs were extracted from the literature and are based on experimental data. For references, read: Akerman et al., 2009.

2

SFmap Motifs Selection

http://sfmap.technion.ac.il/SF_motif_selection.html

Select the motifs of interest from the list:.

3

SFmap - Motifs Analysis and Prediction of Splicing Factors

http://sfmap.technion.ac.il/overview.html

SFmap is a computational tool that enables accurate prediction and mapping of known splicing factor binding sites. For more detailed information about SFmap algorithm, read: Akerman et al., 2009. This web site is supported by Eliyahu Pen Research Fund.

4

SFmap - Motifs Analysis and Prediction of Splicing Factors

http://sfmap.technion.ac.il/manual.html

Distinguishes between human, mouse and other genomes. For non-human/mouse genomes, the calculation is performed directly on the input sequence, without taking into account genomic information. Therefore, the following functions are restricted:. No database assembly selection. The input sequences must be loaded in FASTA format (The genomic coordinates option is not availabe). The COS(WR) scoring function is not available (Only the WR stage of the scoring function is applied). And the maximal is 5,000 bp.

5

SFmap - Motifs Analysis and Prediction of Splicing Factors

http://sfmap.technion.ac.il/index.html

We highly recommend to use our upgraded RBPmap. Web-server (including SFmap features and more) instead of SFmap. Human Feb. 2009 (hg19). Human Mar. 2006 (hg18). Sequence (In FASTA format). (View example). Genomic coordinates ( chromosome:start-end:strand. Paste your sequences/coordinates here:. Sequence length: 21-5,000 bp; Max. number of entries: 5,000). Note that the input size limitations have changed in version 1.8. Or, upload a file:. Motifs selection (optional, default: all motifs).

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yaelab.technion.ac.il

Mandel-Gutfreund Lab | Tools

http://yaelab.technion.ac.il/tools.html

RBPmap: a web server for mapping binding sites of RNA-binding proteins. Paz et al., Nucleic Acids Res., 2014. DRIMust: a web server for Discovering Rank Imbalanced Motifs Using Suffix Trees. Leibovich et al., Nucleic Acids Res., 2013. SFmap: a web server for motif analysis and prediction of splicing factor binding sites. Paz et al., Nucleic Acids Res., 2010. NAbind: classifying NA-binding proteins based on electrostatic properties. Shazman et al., PLoS CB., 2008.

rbpmap.technion.ac.il

RBPmap - Motifs Analysis and Prediction of RNA Binding Proteins

http://rbpmap.technion.ac.il/overview.html

RBPmap is a computational tool that enables accurate prediction and mapping of RNA binding proteins (RBPs) binding sites on any RNA sequence or list of sequences of interest, provided by the users (as either sequences or genomic coordinates). RBPmap has been developed specifically for mapping RBPs in human, mouse and drosophila melanogaster genomes, though it supports mapping RBP binding sites in other organisms too. A detailed description of RBPmap algorithm:. Calculating a match score for the motif.

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sfmap.technion.ac.il

SFmap - Motifs Analysis and Prediction of Splicing Factors

Human Feb. 2009 (hg19). Human Mar. 2006 (hg18). Sequence (In FASTA format). (View example). Genomic coordinates ( chromosome:start-end:strand. Paste your sequences/coordinates here:. Sequence length: 21-5,000 bp; Max. number of entries: 5,000). Note that the input size limitations have changed in version 1.8. Or, upload a file:. Motifs selection (optional, default: all motifs). To select specific motifs from the list. Enter new motifs (optional):. 4-10 bp long, IUPAC symbols only).

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