From: Charles Plessy Date: Tue, 25 Feb 2020 01:26:16 +0000 (+0900) Subject: Consensus splice site. X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=c3c5f1a3a59ea36274a925ef71d56f9647bf652a;p=source%2F.git Consensus splice site. --- diff --git a/biblio/32085510.mdwn b/biblio/32085510.mdwn new file mode 100644 index 00000000..7fb36d0b --- /dev/null +++ b/biblio/32085510.mdwn @@ -0,0 +1,10 @@ +[[!meta title="Animal, Fungi, and Plant Genome Sequences Harbor Different Non-Canonical Splice Sites."]] +[[!tag Oikopleura]] + +Frey K, Pucker B. + +Cells. 2020 Feb 18;9(2). pii: E458. doi:10.3390/cells9020458 + +Animal, Fungi, and Plant Genome Sequences Harbor Different Non-Canonical Splice Sites. + +[[!pmid 32085510 desc="A bioinformatics screen confirms the increased use of GA/AG splicing in _Oikopleura dioica_ and the copepod _Eurytemora affinis_, out of 489 animal species. In both cases, an extended consensus was found: AG|GAA/AG (vertical bar is end of exon)."]] diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn index ce1d0d6d..750919a6 100644 --- a/tags/Oikopleura.mdwn +++ b/tags/Oikopleura.mdwn @@ -119,6 +119,8 @@ Genome (more than 10%) of the (...) introns displayed non-canonical (non GT-AG) splice sites, whereas the usual proportion is around 1%-1.5% in other genomes” ([[Denoeud et al., 2010|biblio/21097902]]). + - The consensus sequence around GA/AG splice sites is AG|GAA/AG + ([[Frey and Pucker, 2020|biblio/32085510]]. - Operons are enriched for houskeeping genes and depleted for developmental genes ([[Denoeud et al., 2010|biblio/21097902]]). - “LTR retrotransposons account for a significant part of the indel polymorphism