Question: what is tAKR in the last of htseq results.
gravatar for ccshao
5.8 years ago by
ccshao10 wrote:

In the last of HTseq counts result, I found the name of "tAKR", above "no_feature", he "tAKR" is also not mentioned in HTseq document.

The last lines of HTseq result is


It doesn't look like gene names, because the gene names end with  "ZZEF1", "ZZZ3". "tAKR" is always 0 (from the data I checked).

Anyone has an idea of what it is?


rna-seq • 2.4k views
ADD COMMENTlink written 5.8 years ago by ccshao10

Is it in all of the samples or just one? Also, which version of htseq-count are you using?

ADD REPLYlink written 5.8 years ago by Devon Ryan94k
gravatar for Martombo
5.8 years ago by
Seville, ES
Martombo2.6k wrote:

I'd guess it is a gene:

why don't you check if it is present in your annotation (GTF file)?

ADD COMMENTlink modified 7 weeks ago by RamRS25k • written 5.8 years ago by Martombo2.6k

@Devon Ryan, htseq version is version 0.5.3p9, it is found in all result files.

@Martombo, good suggestion, I should have checked it earlier. Shame. I used the GTF file provieded by Tophat, and it seem like a gene,

gene_id "tAKR"; transcript_id "NR_026743"; gene_name "tAKR"; tss_id "TSS18500";

Do you want to make your comment as a answer?

ADD REPLYlink modified 7 weeks ago by RamRS25k • written 5.8 years ago by ccshao10

I've moved it to an answer for Martombo and it'd be great if you could accept it.

@Martombo: Good catch!

ADD REPLYlink written 5.8 years ago by Devon Ryan94k
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