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L1Base: from functional annotation to prediction of active LINE-1 elements

MPG-Autoren
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Zemojtel,  Tomasz
Dept. of Computational Molecular Biology (Head: Martin Vingron), Max Planck Institute for Molecular Genetics, Max Planck Society;

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suppl_1.pdf
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D498.pdf
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Zitation

Penzkofer, T., Dandekar, T., & Zemojtel, T. (2005). L1Base: from functional annotation to prediction of active LINE-1 elements. Database Issue, D498-D500. doi:10.1093/nar/gki044.


Zitierlink: https://hdl.handle.net/11858/00-001M-0000-0010-8543-F
Zusammenfassung
L1Base is a dedicated database containing putatively active LINE-1 (L1) insertions residing in human and rodent genomes that are as follows: (i) intact in the two open reading frames (ORFs), full-length L1s (FLI-L1s) and (ii) intact ORF2 but disrupted ORF1 (ORF2-L1s). In addition, due to their regulatory potential, the full-length (>6000 bp) non-intact L1s (FLnI-L1s) were also included in the database. Application of a novel annotation methodology, L1Xplorer, allowed in-depth annotation of functional sequence features important for L1 activity, such as transcription factor binding sites and amino acid residues. The L1Base is available online at http://l1base.molgen.mpg.de. In addition, the data stored in the database can be accessed from the Ensembl web browser via a DAS service (http://l1das.molgen.mpg.de:8080/das).