Brief Summary of Ludwig Transcript (LT) Viewer
Below is a visual representation of a particular transcript with, at most, four possible virtual SAGE tag locations, starting from the 3' end. Transcripts which overlap this longer transcript are positioned on the display and annotated as either internally primed or alternatively polyadenylated. In addition, there is a table containing information on the influence of Single Nucleotide Polymorphisms (SNPs) in the generation of alternative tags
#4 #3 #2 #1 5' 3' bp number: 1 1193 557 749 1023 1105 1244
IP transcripts: BE880036
PA transcripts: AI027409
No SNP-Associated Alternative Tag for this gene.
Tag Info SummaryThe table below summarizes the tag information from above. The tag link enables the user to see which other gene(s) may be represented by the particular tag and the reliability of each mapping. Be aware that it is possible that an internal tag from one gene might, on occasion, have a better match to a different gene and thus the tag frequency is possibly the sum of more than one gene.
Tag Tag Sequence Tag Position BP Number Tag Freq CGACGCTTGA 1 1105 261 GCAAAACCCT 2 1023 3320 GCCTGTTTGG 3 749 453 GGAAAAGTGG 4 557 2397
- corresponds to A-rich regions, defined as an internal stretch of eight adenosines within a 10 bp region.
- IP transcripts are "probably" derived from an internal priming of an internal A-rich region.
- PA transcripts are sequences that have a polyA signal and a poyA tail and therefore are "probably" derived from alternative polyadenylation.