References about TassDB:


Other References about tandem splice sites:

  • Akerman M & Y Mandel-Gutfreund (2006) Alternative splicing regulation at tandem 3' splice sites. Nucleic Acids Res 34 (1) 23-31. PubMed

  • Akerman M & Y Mandel-Gutfreund (2007) Does distance matter? Variations in alternative 3' splicing regulation. Nucleic Acids Res 35 (16) 5487-98. PubMed

  • Campbell MA, BJ Haas, JP Hamilton, SM Mount & CR Buell (2006) Comprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis. BMC Genomics 7: 327. PubMed

  • Chern TM, E van Nimwegen, C Kai, J Kawai, P Carninci, Y Hayashizaki & M Zavolan (2006) A simple physical model predicts small exon length variations. PLoS Genet 2 (4) e45. PubMed

  • Dou Y, KL Fox-Walsh, PF Baldi & KJ Hertel (2006) Genomic splice-site analysis reveals frequent alternative splicing close to the dominant splice site. RNA 12 (12) 2047-56. PubMed

  • Ermakova EO, RN Nurtdinov & MS Gelfand (2007) Overlapping alternative donor splice sites in the human genome. J Bioinform Comput Biol 5 (5) 991-1004. PubMed

  • Hiller M, K Huse, K Szafranski, N Jahn, J Hampe, S Schreiber, R Backofen & M Platzer (2004) Widespread occurrence of alternative splicing at NAGNAG acceptors contributes to proteome plasticity. Nat Genet 36 (12) 1255-7. PubMed

  • Hiller M, K Huse, K Szafranski, N Jahn, J Hampe, S Schreiber, R Backofen & M Platzer (2006) Single-nucleotide polymorphisms in NAGNAG acceptors are highly predictive for variations of alternative splicing. Am J Hum Genet 78 (2) 291-302. PubMed

  • Hiller M, K Huse, K Szafranski, P Rosenstiel, S Schreiber, R Backofen & M Platzer (2006) Phylogenetically widespread alternative splicing at unusual GYNGYN donors. Genome Biol 7 (7) R65. PubMed

  • Hiller M, K Szafranski, R Backofen & M Platzer (2006) Alternative splicing at NAGNAG acceptors: simply noise or noise and more? PLoS Genet 2 (11) e207; author reply e208. PubMed

  • Hiller M, K Szafranski, K Huse, R Backofen & M Platzer (2008) Selection against tandem splice sites affecting structured protein regions. BMC Evol Biol 8: 89. PubMed

  • Hiller M, K Szafranski, R Sinha, K Huse, S Nikolajewa, P Rosenstiel, S Schreiber, R Backofen & M Platzer (2008) Assessing the fraction of short-distance tandem splice sites under purifying selection. RNA 14 (4) 616-29. PubMed

  • Koren E, G Lev-Maor & G Ast (2007) The emergence of alternative 3' and 5' splice site exons from constitutive exons. PLoS Comput Biol 3 (5) e95. PubMed

  • Lai CH, LY Hu & WC Lin (2006) Single amino-acid InDel variants generated by alternative tandem splice-donor and -acceptor selection. Biochem Biophys Res Commun 342 (1) 197-205. PubMed

  • Sinha R, S Nikolajewa, K Szafranski, M Hiller, N Jahn, K Huse, M Platzer & R Backofen (2009) Accurate prediction of NAGNAG alternative splicing. Nucl Acids Res 37 (11) 3569-79. PubMed

  • Sugnet CW, WJ Kent, M Ares, Jr. & D Haussler (2004) Transcriptome and genome conservation of alternative splicing events in humans and mice. Pac Symp Biocomput: 66-77. PubMed

  • Szafranski K, S Schindler, S Taudien, M Hiller, K Huse, N Jahn, S Schreiber, R Backofen & M Platzer (2007) Violating the splicing rules: TG dinucleotides function as alternative 3' splice sites in U2-dependent introns. Genome Biol 8 (8) R154. PubMed

  • Tadokoro K, M Yamazaki-Inoue, M Tachibana, M Fujishiro, K Nagao, M Toyoda, M Ozaki, M Ono, N Miki, T Miyashita & M Yamada (2005) Frequent occurrence of protein isoforms with or without a single amino acid residue by subtle alternative splicing: the case of Gln in DRPLA affects subcellular localization of the products. J Hum Genet 50 (8) 382-94. PubMed

  • Tsai KW & WC Lin (2006) Quantitative analysis of wobble splicing indicates that it is not tissue specific. Genomics 88 (6) 855-64. PubMed

  • Tsai KW, WY Tarn & WC Lin (2007) Wobble splicing reveals the role of the branch point sequence-to-NAGNAG region in 3' tandem splice site selection. Mol Cell Biol 27 (16) 5835-48. PubMed

  • Xia H, J Bi & Y Li (2006) Identification of alternative 5'/3' splice sites based on the mechanism of splice site competition. Nucleic Acids Res 34 (21) 6305-13. PubMed

  • Zavolan M, S Kondo, C Schonbach, J Adachi, DA Hume, Y Hayashizaki & T Gaasterland (2003) Impact of alternative initiation, splicing, and termination on the diversity of the mRNA transcripts encoded by the mouse transcriptome. Genome Res 13 (6B) 1290-300. PubMed


References describing functional differences for the respective protein isoforms:

  • Bourinet E, TW Soong, K Sutton, S Slaymaker, E Mathews, A Monteil, GW Zamponi, J Nargeot & TP Snutch (1999) Splicing of alpha 1A subunit gene generates phenotypic variants of P- and Q-type calcium channels. Nat Neurosci 2 (5) 407-15. PubMed

  • Burgar HR, HD Burns, JL Elsden, MD Lalioti & JK Heath (2002) Association of the signaling adaptor FRS2 with fibroblast growth factor receptor 1 (Fgfr1) is mediated by alternative splicing of the juxtamembrane domain. J Biol Chem 277 (6) 4018-23. PubMed

  • Caffrey JJ, ST Safrany, X Yang & SB Shears (2000) Discovery of molecular and catalytic diversity among human diphosphoinositol-polyphosphate phosphohydrolases. An expanding Nudt family. J Biol Chem 275 (17) 12730-6. PubMed

  • Condorelli G, R Bueno & RJ Smith (1994) Two alternatively spliced forms of the human insulin-like growth factor I receptor have distinct biological activities and internalization kinetics. J Biol Chem 269 (11) 8510-6. PubMed

  • Hinzpeter A, Aissat A, Sondo E, Costa C, Arous N, et al. (2010) Alternative Splicing at a NAGNAG Acceptor Site as a Novel Phenotype Modifier. PLoS Genet 6(10): e1001153.

  • Hu CA, WW Lin, C Obie & D Valle (1999) Molecular enzymology of mammalian Delta1-pyrroline-5-carboxylate synthase. Alternative splice donor utilization generates isoforms with different sensitivity to ornithine inhibition. J Biol Chem 274 (10) 6754-62. PubMed

  • Joyce-Brady M, JC Jean & RP Hughey (2001) gamma-glutamyltransferase and its isoform mediate an endoplasmic reticulum stress response. J Biol Chem 276 (12) 9468-77. PubMed

  • Koenig Merediz SA, M Schmidt, GJ Hoppe, J Alfken, D Meraro, BZ Levi, A Neubauer & B Wittig (2000) Cloning of an interferon regulatory factor 2 isoform with different regulatory ability. Nucleic Acids Res 28 (21) 4219-24. PubMed

  • Lorkovic ZJ, R Lehner, C Forstner & A Barta (2005) Evolutionary conservation of minor U12-type spliceosome between plants and humans. RNA 11 (7),1095-107. PubMed

  • Makielski JC, B Ye, CR Valdivia, MD Pagel, J Pu, DJ Tester & MJ Ackerman (2003) A ubiquitous splice variant and a common polymorphism affect heterologous expression of recombinant human SCN5A heart sodium channels. Circ Res 93 (9) 821-8. PubMed

  • Ray DW, JR Davis, A White & AJ Clark (1996) Glucocorticoid receptor structure and function in glucocorticoid-resistant small cell lung carcinoma cells. Cancer Res 56 (14) 3276-80. PubMed

  • Rivers C, A Levy, J Hancock, S Lightman & M Norman (1999) Insertion of an amino acid in the DNA-binding domain of the glucocorticoid receptor as a result of alternative splicing. J Clin Endocrinol Metab 84 (11) 4283-6. PubMed

  • Tadokoro K, M Yamazaki-Inoue, M Tachibana, M Fujishiro, K Nagao, M Toyoda, M Ozaki, M Ono, N Miki, T Miyashita & M Yamada (2005) Frequent occurrence of protein isoforms with or without a single amino acid residue by subtle alternative splicing: the case of Gln in DRPLA affects subcellular localization of the products. J Hum Genet 50 (8) 382-94. PubMed

  • Takeda H, T Matsuzaki, T Oki, T Miyagawa & H Amanuma (1994) A novel POU domain gene, zebrafish pou2: expression and roles of two alternatively spliced twin products in early development. Genes Dev 8 (1), 45-59. PubMed

  • Treacy MN, LI Neilson, EE Turner, X He & MG Rosenfeld (1992) Twin of I-POU: a two amino acid difference in the I-POU homeodomain distinguishes an activator from an inhibitor of transcription. Cell 68 (3) 491-505. PubMed

  • Unoki M, JC Shen, ZM Zheng & CC Harris (2006) Novel splice variants of ING4 and their possible roles in the regulation of cell growth and motility. J Biol Chem 281 (45), 34677-86. PubMed

  • Vogan KJ, DA Underhill & P Gros (1996) An alternative splicing event in the Pax-3 paired domain identifies the linker region as a key determinant of paired domain DNA-binding activity. Mol Cell Biol 16 (12) 6677-86. PubMed

  • Wagner KD, N Wagner & A Schedl (2003) The complex life of WT1. J Cell Sci 116 (Pt 9) 1653-8. PubMed

  • Yan M, LC Wang, SG Hymowitz, S Schilbach, J Lee, A Goddard, AM de Vos, WQ Gao & VM Dixit (2000) Two-amino acid molecular switch in an epithelial morphogen that regulates binding to two distinct receptors. Science 290 (5491) 523-7. PubMed