This track shows the start and end sequence tags of mRNA transcripts determined by paired-end ditag (PET) sequencing. PETs are composed of 14-21 bases from either end of a cDNA. See the References section below for more details on PET sequencing. The track shows GSC (gene signature cloning) and GIS (gene identification signature) PETs.
GSC libraries:
GIS libraries:
The 5' and 3' ends of the ditag features are represented as small boxes connected by a horizontal arrow indicating the strand/direction. Clicking on the feature brings up a menu with information about this ditag and a link to this more detailed description.
The ditags were split in half and aligned to the unmasked genome sequence using Exonerate. The hits were filtered using the following strategy:
Identical sequences and hits to the same location (start & end of ditag) were collapsed into a non-redundant set.
The ditag libraries were downloaded from the FANTOM consortium site and processed using code of the EnsEMBL project.
Carninci P. et al.
The
transcriptional landscape of the mammalian genome..
Science 309(5740), 1559-63 (2005).
Ng P, Wei CL, Sung WK, Chiu KP, Lipovich L, Ang CC, Gupta S,
Shahab A, Ridwan A, Wong CH, Liu ET, Ruan Y.
Gene
identification signature (GIS) analysis for transcriptome
characterization and genome annotation.
Nat. Methods 2(2), 105-11 (2005).
Slater GS, Birney E
Automated
generation of heuristics for biological sequence comparison.
BMC Bioinformatics 6(1), 31 (2005).