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Index of /EvidentialGene/killifish/Introns

      Name                      Last modified       Size  

[DIR] Parent Directory 10-Jan-2014 14:45 - [TXT] intron.kf1rs.scramble.tab 05-Oct-2013 19:37 71k [TXT] intron.kf2rs.scramble.tab 05-Oct-2013 19:36 112k [   ] intron_good.gff.gz 10-Jul-2013 15:44 4.8M [TXT] intron_validlong2.gff 10-Jul-2013 15:52 477k


Killifish intron locations from mapped EST/RNA-seq reads
as locations with count of reads per location, in intron_good.gff
intron_validlong.gff has introns > 20kb found in multiple reads.

intron source locus counts: 
intron_good	:346667  (all below)
intron.kf2est	:205079  (Fun.he.)
intron.kf2rnaseq:330295  (Fun.he.)
intron.kgrnaseq :161213  (Fun.gr.)

RNA-seq introns scrambled on mapping to genome assemblies:
intron.kf1rs.scramble.tab : n=1258, kfish genome asm2 (2012 jun, killifish20120621asm)
intron.kf2rs.scramble.tab : n=1972, kfish genome asm2 (2013 mar, killifish20130322asm)

Tables list paired, overlapped reliable introns (found in >= 8 reads).
Scrambling refers to impossible overlapped introns/exons of one transcript:
    x1 ]-------> x2
         x3 ]------> x4

Developed at the Genome Informatics Lab of Indiana University Biology Department