Pleurozium_schreberi_annotated_genome_files

Annoatated genome of moss Pleurozium schreberi

• BILS Genome Annotation Platform team * Fri Jun 1 14:59:20 CEST 2018 Please find here an overview about data available.

<Species_Annotation_Report.docx> file => A complete report of work/process performed.

directory => It contains data in FASTA format. ================= <cds.fasta> file => It contains cds of annotated genes. <protein.fasta> file => It contains the proteins produced by the annotated genes. sub directory =========== <Trinity_*_.fasta> is the output of our Trinity pipeline used as inout for Maker.

directory => It contains data in gff3 format.

<gene-builds> sub directory

===========	<species_rcX.gff> Are the “release candidate” annotation for the species. The higher release candidate corresponds to the most successful achievement.

<lift-overs> sub directory (depending on customer demand)
============	<referenceSpecies2studiedSpecies.gff> It is the lift-over of a reference species genome annotation (from Ensembl) on the genome under investigation.

<ncRNA> sub directory
=======		<ncRNA_rfam.gff> It contains annotation of non-coding element annotated using the Eucaryotes data from Rfam database.
		<*_tRNA.gff> It contains transfert RNA annotated using tRNAscan.

<repeats> sub directory
=======	<repeatmasker.gff> It contains repeats annotated thanks to repeatmasker.
	<repeatrunner.gff> It contains repeats annotated thanks to repeatrunner.

<transcripts> sub directory
===========       <Cufflinks_*.gff> contains output of our Cufflinks pipeline used as input for Maker. (Depending of RNAseq data types, and the most appropriate Transcriptome assembly method chosen.)
		  <Trinity_*.gff> is the gff output created by Maker using the Trinity_*_.fasta file as input. (Depending of RNAseq data types, and the most appropriate Transcriptome assembly method chosen.)
		  <*> Depending of RNAseq data types, and the most appropriate Transcriptome assembly method chosen.

directory ========== <go.txt> Tab-delimited format file (2 rows) containing GO terms of functions retrieved for each transcript. <pfam.txt> Tab-delimited format file (2 rows) containing pram terms of functions retrieved for each transcript. <interpro.txt> Tab-delimited format file (2 rows) containing interpro terms of functions retrieved for each transcript.

directory ========= General information about annotated coding genes General information about annotated tRNA