The genome and genome annotation version 1 of Mesotaenium endlicherianum can be downloaded by the link provided on the published paper by (Cheng et al., 2019). You can download the files of genome annotation version 2 below:
We used InterProScan-5.59-91.0 to find protein domains in Mesotaenium endlicherianum proteins (annotation V2). It is large table, we suggest to handle it with care (do not use excel if possible).
If you are interested in a specific gene, we highly recommend to visualize the genome using a genome browser and load both V1 and V2 gff files to investigate the gene structure in detail. However, we provide a table that summerize the relationship between gene IDs in V1 and V2.
We compared the annotation V2 to the annotation V1 to get a “mapping
table” between annotations. This was done using gffcompare v0.12.6. You
can download the results below. If you do not know how to read the
tables, you can read the gffcompare
documentaiton. If it is to complicated (or you do not have time
and/or enthusiasm), please open V1_as_ref_.tracking with a
text editor and use find method to find any gene ID that you are
interested in. On the 4th column of this table there is a letter code
which can be understood using gffcompare documentation
figure.
For the above comparison we took, the annotation V1 as the reference and compared V2 to it. If you are interested in the reverse comparison (V2 as the reference and V1 as query), you can download the results using the link below.
We used KAAS to assign KEGG ortholog ID to each protein sequence. The result and input parameters are available below. You can use the clusterProfiler package and R to perform KEGG enrichment.
We also performed functional annotation using eggNOG-mapper. You can download the result using the button below.
