Deep research summary for A0A8B6BFL6
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Identifies the protein as a putative retrotransposon-associated reverse transcriptase with RNA-dependent DNA polymerase activity, involved in mobile element propagation in the M. galloprovincialis genome.
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Describes the M. galloprovincialis genome as repeat-rich with 43% repeat content and extensive structural variation, providing context for the abundance of retrotransposon-derived proteins.
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Reviews bivalve LINE diversity across 27 genomes, identifying 86,488 RT-containing elements from 12 distinct clades.
ProtNLM2 predictions review for A0A8B6BFL6
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ProtNLM2 predicted DNA binding (GO:0003677, assessed as LSP), DNA recombination (GO:0006310, assessed as COR), and DNA integration (GO:0015074, assessed as COR) for this protein.
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The CDD RNase_HI_RT_DIRS1 domain (cd09275) identifies this protein as belonging to the DIRS1 retrotransposon class, which uses tyrosine recombinase-mediated recombination for integration rather than LINE-type target-primed reverse transcription.
DIRS retrotransposons amplify via linear, single-stranded cDNA intermediates.
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DIRS elements are retrotransposons that use a tyrosine recombinase instead of an integrase or endonuclease. They encode GAG, RT, RNase H and YR functions.
"These comprise, next to the name-giving YR, a putative GAG protein (GAG), a reverse transcriptase (RT) and an RNase H (RH)."
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Element-level genetics in Dictyostelium shows that the DIRS-1-encoded reverse transcriptase acts in trans to generate cDNA for retrotransposition.
"indicated that the endogenous DIRS-1 reverse transcriptase can act in trans"
Sequence comparison of A0A8B6BFL6 with PTHR33050:SF7 members
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A0A8B6BFL6 aligns with DIRS-1 ORF2 (O96849) continuously across the RT and RNase H regions (z=51.7 vs shuffled controls). It aligns weakly with DHBV polymerase P (RT core only) and not at all with the DIRS-1 tyrosine recombinase. The RT motif C YLDD is retained.
"The target aligns with DIRS-1 ORF2 continuously across both the RT and the RNase H regions"