From 5fbba21cf5ef18b438342463dbcf8e1751a023a7 Mon Sep 17 00:00:00 2001 From: Charles Plessy Date: Tue, 25 Feb 2020 10:11:07 +0900 Subject: [PATCH] Write down splice site motifs. --- biblio/31543449.mdwn | 4 ++-- tags/Oikopleura.mdwn | 8 ++++---- 2 files changed, 6 insertions(+), 6 deletions(-) diff --git a/biblio/31543449.mdwn b/biblio/31543449.mdwn index 396eb71a..7c5363bb 100644 --- a/biblio/31543449.mdwn +++ b/biblio/31543449.mdwn @@ -7,8 +7,8 @@ Henriet S, Colom Sanmartí B, Sumic S, Chourrout D. Evolution of the U2 Spliceosome for Processing Numerous and Highly Diverse Non-canonical Introns in the Chordate Fritillaria borealis. -[[!pmid 31543449 desc="In Fritillaria borealis, most ancestral canonical -introns were lost. New introns with non-canonical splice sites were created by +[[!pmid 31543449 desc="In Fritillaria borealis, most ancestral GT/AG canonical +introns were lost. New AG/AR introns with non-canonical splice sites were created by the insertion of MITEs (miniature inverted-repeat transposable elements) after TA sites. Splicing of non-canonical introns can be inhibited with Pladienolide B. Non-canonical introns of F. bor and O. dioica genes can not be spliced in diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn index 1eca8ec1..ce1d0d6d 100644 --- a/tags/Oikopleura.mdwn +++ b/tags/Oikopleura.mdwn @@ -115,7 +115,7 @@ Genome - Analysis of sex-linked markers supports genetic sex determination with male heterogamety – that is: X chromosomes for females and Y for males. ([[Denoeud et al., 2010|biblio/21097902]]) - The major spliceosome is hypothethised to have evolved - to become more permissive in order to splice G*-AG sites. ”A large fraction + to become more permissive in order to splice G*/AG sites. ”A large fraction (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]]). @@ -272,10 +272,10 @@ Transcriptome 2010|biblio/21097902]]). Larger introns tend to be older, and among the large introns, the older contain repeat elements less frequently than the newer ([[Denoeud et al., 2010|biblio/21097902]]). In _Fritilaria borealis_, most - introns are derived from the insertion of MITE elements and are non-canonical + introns are derived from the insertion of MITE elements and are AG/AR non-canonical ([[Henriet and coll., 2019|biblio/31543449]]). - - HEK293T cells can only splice canonical _O. dioica_ (and _F. borealis_) introns, - but not the non-canonical ones ([[Henriet and coll., 2019|biblio/31543449]]). + - HEK293T cells can only splice canonical GT/AG _O. dioica_ (and _F. borealis_) introns, + but not the non-canonical AG/AR ones ([[Henriet and coll., 2019|biblio/31543449]]). - 12 developmental stages were studied with tiling arrays by [[Danks et al., 2013|biblio/23185044]]. - On the histone mRNAs, no purine-rich histone downstream element (HDE) was found by [[Chioda, Eskeland and Thompson in 2002|biblio/12446815]]. -- 2.47.3