Description
CsRN1 is a LTR retrotransposon characterized in the genome of Clonorchis sinensis (Bae et al. 2001). CsRN1 gives the name and belongs to CsRN1 clade (Bae et al. 2001). The genomic full-length consensus for CsRN1 is 5 Kb in size and flanked by LTRs which display an average size of 471 nt. The internal region of this element displays a Primer Binding Site (PBS) complementary to a tRNATrp, a sole Open Reading Frame (ORF) coding for a gag-pol precursor, and a Polypurine Tract (PPT) adjacent to the 3´LTR (Bae et al. 2001).
Structure
Figure not to scale. If present, long terminal repeats (LTRs) have been highlighted in blue. Amino acid motifs noted with lines indicate the conserved residues in each protein domain, abbreviations below mean:
| MA=matrix
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PR=protease
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DU or DUT=dUTPase
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TM=transmembrane
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TAV or IBMP=transactivator/viroplasmin or inclusion body matrix protein
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| CA=capsid
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RT=reverse transcriptase
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INT=Integrase
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CHR=chromodomain
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| NC=nucleocapsid
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RH=RNaseH
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SU=surface
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MOV=movement protein
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| PPT=polypurine tract
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PBS=primer binding site
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ATF=aphid transmission factor
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VAP=virion associated protein
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Related literature
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