Hello all. I have a set of DE genes from a single replicate as identified by the GFOLD package. Though I am getting results which have the same gene ID but different suffixes at the end of the name and different GFOLD levels. I used a .bed file for the annotation. Usually I use a .gff3 file with HTSeq-count.
It looks like this:
Can anybody clarify to me the differences between these Gene Symbols? I am used to Gene names looking something like this:
Thanks
It looks like this:
Code:
#GeneSymbol GeneName GFOLD(0.005) 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1 NA -4.50996 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1.cds1 NA -3.62531 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1.cds2 NA -2.81447 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1.cds3 NA -3.38619 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1.cds4 NA -2.05015 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1.cds5 NA -1.9145 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1.cds6 NA -2.44262 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1.cds7 NA -3.6937 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1.cds8 NA -1.33762 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1.cds9 NA -3.64182 42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+.mrna1.exon1 NA -3.62531
Code:
42SP43|c.Taira201203kidney_X008044|JGIv7b.000075417_5391788-5397899+__chr9_10L 42SP50|c.XenBase_133737005|JGIv7b.000220448_3999398-4005758+__chr6L A1CF|c.Taira201203intestine_X005935|JGIv7b.000079772_4581973-4609884+__chr7L