TREP, the TRansposable Elements Platform

Superfamily Jokey                   RIJ

Full classification: Retrotransposon, non-LTR (SINE), Jokey

Jokey elements are Class 1 transposons.

They are found in animals. This superfamily is probably obsololet because it is not really distinguishable from L1 (RIL) elements. Upon insertion, they create a variable bp Target site duplication (TSD).

Structure of Jokey elements

Sequence domains

ORF1: ORF1 protein
Function: Guides mRNA/RT complex back into nucleus
Protein motifs: CCHC

APE: Apurinic endonuclease
Function:
Protein motifs:

RT: Reverse transcriptase
Function: Reverse transcription of mRNA to DNA, core motif is relatively variable (FY)(IAMV)DD
Protein motifs: YVDD

polyA: Poly-A tail
Function: Result of reverse transcription of mRNA. Sometimes, it is not a poly-A (weird stuff)
Protein motifs:

68 Jokey Download all 'RIJ' elements in total_TREP database elements from the following taxa are in the total_TREP database:

Taxonomic group	Total elements
ANIMALIA	7
FUNGI	61

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