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SAGE Genie
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LT Viewer

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

Transcript BC098418

#4
#3
#2
#1
5' 
big blue_4 median leg_4 median blue_3 median leg_3 median blue_2 median leg_2 median blue_1 median leg_1 median median  3'
bp number:
1
406
541
680
1568
1809


No IP for this gene.

No APA for this gene.

No SNP-Associated Alternative Tag for this gene.

Tag Info Summary

The 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 
leg_1 GATGGAGCGC 1 1568 9
leg_2 AACGGTCCCA 2 680 15
leg_3 GACAAAGCCA 3 541 10
leg_4 GCCGTGCCTC 4 406 3

Notes:

  • A_plus 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.