STAR-Aligner different Ensembl-genome- and -gtf-release

[4D45]

Hi there,

I am using STAR-Aligner to align my RNASeq Data. To generate the genome I have given STAR an Ensembl GRCh38 genome-FastaFile and gtf-File. Now I noticed, that my genome is release 77 (because this was recommended in the STAR manual) and my gtf is release 82. Will this different releases be a problem in further analysis? In detail:
- Problem for Alignment?
- Problem for counting reads intern in Star-Aligner with htseq during the Alignment step?
- Problem for counting reads extern? (and which release should be used here?)
- Problem for counting Splice Junctions intern in Star-Aligner?

Thanks for your help

[dpryan]

It'll work fine.