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Heteromeric RNP Assembly at LINEs Controls Lineage-Specific RNA Processing

Attig, J; Agostini, F; Gooding, C; Chakrabarti, A M; Singh, A; Haberman, N; Zagalak, J A; Emmett, W; Smith, C W J; Luscombe, N M; Ule, J


J Attig

F Agostini

C Gooding

A M Chakrabarti

A Singh

N Haberman

J A Zagalak

W Emmett

C W J Smith

N M Luscombe

J Ule


Long mammalian introns make it challenging for the RNA processing machinery to identify exons accurately. We find that LINE-derived sequences (LINEs) contribute to this selection by recruiting dozens of RNA-binding proteins (RBPs) to introns. This includes MATR3, which promotes binding of PTBP1 to multivalent binding sites within LINEs. Both RBPs repress splicing and 3′ end processing within and around LINEs. Notably, repressive RBPs preferentially bind to evolutionarily young LINEs, which are located far from exons. These RBPs insulate the LINEs and the surrounding intronic regions from RNA processing. Upon evolutionary divergence, changes in RNA motifs within LINEs lead to gradual loss of their insulation. Hence, older LINEs are located closer to exons, are a common source of tissue-specific exons, and increasingly bind to RBPs that enhance RNA processing. Thus, LINEs are hubs for the assembly of repressive RBPs and also contribute to the evolution of new, lineage-specific transcripts in mammals.


Attig, J., Agostini, F., Gooding, C., Chakrabarti, A. M., Singh, A., Haberman, N., …Ule, J. (2018). Heteromeric RNP Assembly at LINEs Controls Lineage-Specific RNA Processing. Cell,

Journal Article Type Article
Acceptance Date Jul 1, 2018
Publication Date Aug 2, 2018
Deposit Date Aug 15, 2018
Publicly Available Date Aug 15, 2018
Journal Cell
Print ISSN 0092-8674
Publisher Elsevier
Peer Reviewed Peer Reviewed
Public URL


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