imported>Gydbwiki at 12:23, 18 December 2009

2009-12-18T12:23:14Z

New page

{{Element
|genbank=[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=1764010 Z83760]
|type=Cigr-1
|genus= Undetermined
|subfamily=Branch 2
|family=Ty3/Gypsy
|group=LTR retroelements
|description=''Cigr-1'' is a heterogeneous ''Ty3/Gypsy'' LTR retrotransposon described in the genome of the urochordate ''Ciona intestinalis'' ([[Literature:69977|Simmen et al. 1998]]). ''Cigr-1'' seems to be transcriptionally active and escapes DNA methylation in ''C.intestinalis'' whose genome is a stable mosaic of methylated and nonmethylated domains [[Literature:69976|(Simmen et al. 1999)]]. Although ''Cigr-1'' has been described as an own lineage [[Literature:69976|(Simmen et al. 1999]]; [[Literature:69975|Simmen and Bird. 2000]]) its gag polyprotein is strongly similar to those encoded by '' Mag''-like elements. Moreover, gag-pro-pol phylogenetic analyses indicate that ''Cigr-1'' might be a distant ''Mag'' recombinant or a sibling lineage of ''Mag'' clade ([[Phylogeny:GagPol|see gag-pro-pol tree in section "phylogenies"]]). The genomic structure of ''Cigr-1'' is 4.2 Kb in size including LTRs of 245 nt. The internal region of this element displays a single Open Reading Frame (ORF) coding for a gag-pol polyprotein, and a Polypurine Tract (PPT) adjacent to the 3´LTR ([[Literature:69977|Simmen et al. 1998]][[Literature:69975|; Simmen and Bird. 2000]]). ''Cigr-1'' also exhibits, close to the 5´LTR, an unidentified putative Primer Binding Site (PBS) of 18 nt in size characterized by the following ''"tggccaccataaacatta"'' DNA motif.
|structure=Cigr-1.png
|host=Ciona intestinalis
|hostpic=Ciona_intestinalis.gif
|literature=*[[Literature:15303|Mobile DNA II. (Craig et al. 2002)]]
|picowner=[http://www.onderwaterwereld.net/oww_ml/php/fotogroot.php?&TLC=UK&SOC=ZKPPN&SSC=Ciona%20intestinalis&FTC=DSC_7282_doorschijnende_zakpijp.jpg&GBD=ALLE Courtesy of "onderwaterwereld" web site, copyright of the author Duncan van Vliet]
}}

Element:Cigr-1 - Revision history

imported>Gydbwiki at 12:23, 18 December 2009