title: [IRE_FINDER-computational search of iron response element in human and mouse UTRs].
abstract: The iron response element (IRE) is a highly conserved RNA stem loop structure. It is the binding site of iron regulatory protein (IRP). IRP binding to IRE is regulated by cellular iron. When cells are derived of iron, IRP binds IRE. If IRE is located at 5'UTR, IRP binding will inhibit translation initiation, else if IRE is at 3'UTR, IRP binding will stabilize mRNA and prevent it from degradation. So far all known IREs have C at the 1 position and G at the 5 position of the loop (C1G5 type). In vitro studies suggest that the U1A5 type IRE, which has U and A at the 1 and 5 loop position respectively, binds well to IRP. However, U1A5 type's in vivo existence is still elusive. IRE-IRP binding is involved in the regulation of iron metabolism, oxidative stress and possibly aging. Here we use an improved computation method performing a comprehensive search of IRE in human and mouse genes. We try to catalog potential human and mouse IRE containing genes, at the same time identify potential U1A5 IREs.
authors.affiliation: College of life Science, Peking University, Beijing 100871, China. ying.jiang@spcorp.com
authors.forename: Xin
authors.initials: X
authors.lastname: Chen
authors.forename: Lu-Quan
authors.initials: LQ
authors.lastname: Wang
authors.forename: Yi
authors.initials: Y
authors.lastname: Huang
authors.forename: Ping
authors.initials: P
authors.lastname: Qiu
authors.forename: Nicholas J
authors.initials: NJ
authors.lastname: Murgolo
authors.forename: Jonathan R
authors.initials: JR
authors.lastname: Greene
authors.forename: Cai-Hong
authors.initials: CH
authors.lastname: Wu
authors.forename: Ying
authors.initials: Y
authors.lastname: Jiang
mesh_terms: D020413:3' Untranslated Regions / Q000737:chemistry / Q000235:genetics*; D020121:5' Untranslated Regions / Q000737:chemistry / Q000235:genetics*; D000818:Animals; D001483:Base Sequence; D001665:Binding Sites / Q000235:genetics; D005786:Gene Expression Regulation / Q000187:drug effects; D006801:Humans; D007501:Iron / Q000378:metabolism / Q000494:pharmacology*; D033862:Iron-Binding Proteins / Q000378:metabolism; D051379:Mice; D009690:Nucleic Acid Conformation; D020218:Response Elements / Q000187:drug effects / Q000235:genetics*; D012984:Software
chemical_list: D020413:3' Untranslated Regions; D020121:5' Untranslated Regions; D033862:Iron-Binding Proteins; D007501:Iron