LETTER

Analysis of the preferences for splice codes across tissues

  • Tao Huang , 2 ,
  • Meng Wang 2 ,
  • Yu-Dong Cai , 1
Expand
  • 1. College of Life Science, Shanghai University, Shanghai 200444, China
  • 2. Institute of Health Sciences, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China

Published date: 04 Jan 2016

Copyright

2014 This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Cite this article

Tao Huang , Meng Wang , Yu-Dong Cai . Analysis of the preferences for splice codes across tissues[J]. Protein & Cell, 2015 , 06(12) : 904 -907 . DOI: 10.1007/s13238-015-0226-5

1
Ashiya M, Grabowski PJ (1997) A neuron-specific splicing switch mediated by an array of pre-mRNA repressor sites: evidence of a regulatory role for the polypyrimidine tract binding protein and a brain-specific PTB counterpart. RNA 3:996–1015

2
Barash Y, Calarco JA, Gao W, Pan Q, Wang X, Shai O, Blencowe BJ, Frey BJ (2010) Deciphering the splicing code. Nature 465:53–59

DOI

3
Black DL (2003) Mechanisms of alternative pre-messenger RNA splicing. Annu Rev Biochem 72:291–336

DOI

4
Castle JC, Zhang C, Shah JK, Kulkarni AV, Kalsotra A, Cooper TA, Johnson JM (2008) Expression of 24,426 human alternative splicing events and predicted cis regulation in 48 tissues and cell lines. Nat Genet 40:1416–1425

DOI

5
Chan RC, Black DL (1997) The polypyrimidine tract binding protein binds upstream of neural cell-specific c-src exon N1 to repress the splicing of the intron downstream. Mol Cell Biol 17:4667–4676

DOI

6
Faustino NA, Cooper TA (2005) Identification of putative new splicing targets for ETR-3 using sequences identified by systematic evolution of ligands by exponential enrichment. Mol Cell Biol 25:879–887

DOI

7
Gooding C, Clark F, Wollerton MC, Grellscheid SN, Groom H, Smith CW (2006) A class of human exons with predicted distant branch points revealed by analysis of AG dinucleotide exclusion zones. Genome Biol 7:R1

8
Grosso AR, Gomes AQ, Barbosa-Morais NL, Caldeira S, Thorne NP, Grech G, von Lindern M, Carmo-Fonseca M (2008) Tissuespecific splicing factor gene expression signatures. Nucleic Acids Res 36:4823–4832

DOI

9
Matlin AJ, Clark F, Smith CW (2005) Understanding alternative splicing: towards a cellular code. Nat Rev Mol Cell Biol 6:386–398

DOI

10
Wang ET, Sandberg R, Luo S, Khrebtukova I, Zhang L, Mayr C, Kingsmore SF, Schroth GP, Burge CB (2008) Alternative isoform regulation in human tissue transcriptomes. Nature 456:470–476

DOI

11
Wang Y, Ma M, Xiao X, Wang Z (2012) Intronic splicing enhancers, cognate splicing factors and context-dependent regulation rules. Nat Struct Mol Biol 19:1044–1052

DOI

12
Xiao X, Wang Z, Jang M, Burge CB (2007) Coevolutionary networks of splicing cis-regulatory elements. Proc Natl Acad Sci USA 104:18583–18588

DOI

13
Yeo GW, Van Nostrand EL, Liang TY (2007) Discovery and analysis of evolutionarily conserved intronic splicing regulatory elements. PLoS Genet 3:e85

Outlines

/