Table S2.
Sequences of oligonucleotide primers, probes and point mutations for splicing reporter genes
| Gene and relative location | Name/additional details | Sequence |
| ATXN2L exon 17 forward | oST919 | GCTCGGACCAACACCAGCCAG |
| ATXN2L exon 18 backward | oST920 | GGTAGAGGATGACACGATGGCCTG |
| ATXN2L exon 19 forward | oST921 | CCAGGCCATCGTGTCATCCTCTAC |
| ATXN2L exon 20 backward | oST922 | TGCGGCTGGCTTCCAGTAGG |
| ATNX2L exon 16 forward | oST949 | CCATCCCGGTGCTGACAGCAG |
| ATNX2L exon 17 backward | oST950 | CCAGGCACTGAATTGGATACAGGAT |
| pFlag vector specific primer forward | oST973 | TTTGTAGTCAGCCCGGGATCCTC |
| pFlag vector specific primer backward | oST995 | AGAGCTCGTTTAGTGAACCGTCAGA |
| POLR2 exon 26 forward | oST909 | TGCCATGACACCTTGGAACCA |
| POLR2 exon 28 backward | osT910 | GCAGGTGACGTTGGCGAGTAG |
| POLR2 exon 2 forward | oST917 | ACTGGCCGCTGCCAAACATGTG |
| POLR2 exon 3 backward | oST918 | AGAGTCCACAAGCAGTTTGGAGCA |
| NFS1 exon 1 forward | oST961 | GGCGGTGACAGCGGCTCCAG |
| NFS1 exon 2 backward | oST962 | CATCCATATAGAGAGGTCGCAGCAC |
| NFS1 exon 10 forward | oST981 | TATGTGGAAGGGGAAAGTCTGCTGA |
| NFS1 exon 11 backward | oST982 | CTGATAGAAGAGTGCGCTAAATCCTC |
| ZER1 exon 1 forward | oST989 | CTTAGAAGCTCAAGGACGACTTGGA |
| ZER1 exon 2 backward | oST990 | CAGTACAGAGGGCCATCAGCGA |
| DESI2 exon 1 forward | oST985 | GACGCTCCGGTGAACCCAGT |
| DESI2 exon 2 backward | oST986 | CTCCAATTCCAATGGATGAGGTATAT |
| EIF4G3 exon 1 forward | oST945 | GACTGCTGGAGGCGGCCACA |
| EIF4G3 exon 2 backward | oST946 | GCCGGGTCCGGTTCCTGCTG |
| EIF4G3 exon 2 forward | oST947 | AGCAGGAACCGGACCCGGCA |
| EIF4G3 Intron 2 backward | oST948 | CTGTCCCTTTCCTGGCTGGGCT |
| ICP34.5 exon 1 (-90) forward | oST708 | CTGCGCACCACGACGGAGTA |
| ICp34.5 exon 2 (29) backward | oST430 | CCGCGCGTGCAGGTGCG |
| KSHV K8 exon 2 (-90) forward | oST838 | GAAGTATGTGATCAGTCACATTCT |
| GAPDH exon 2 forward | oST726 | TACATGTTCCAATATGATTC |
| GAPDH exon 3 backward | oST727 | GTGGACTCCACGACGTACTC |
| β-actin exon 4 forward | oST728 | GACCTGTACGCCAACACAG |
| β-actin exon 4 backward | oST729 | TCGTCATACTCCTGCTTGC |
| pATXN2L-C1-2M | Mutations in exon 17 C-rich sequence (-170-1) | gctcggaccaacaccagccagcaacagcgacgccgatgatgcaggcagcggcggctgctggcacgcagatggtggctgccacgcaagattctgactacatccaatacaacaatcagcagttaacaggccagcaagcaatgatgcagcacatggcagactacgagacacag |
| pATXN2L-IN-M | Mutations in intron 17 C-rich sequence (1-364) | gtgactgcggcccaggagggcagtgaggatacagggcaactgctagggataactctaaaccagagacttgggagctggctaggggtggcaggcagtgttgtaggtgggatcggcaatctgtggtattggcggtgtcagacttgggcttgagcaatggctctggtggtacctgtaacaaggcattggacatctgtatctctgaagtgtagagaaaatagtgtctgctgggtgggatcgttatgaatgttgaatcaatagggtgattgtgaggaggcccaagcggtgctgtgcacgcagtgactggcaggaggacaccttcccagctggcggctgtgccaaccactcctctctctgtcccgccag |
| Mutations in C1-2-IN-M | Contains combined mutations from both pATXN2L-C1-2M and pATNX2L-IN-M | See above |
| Mutations in C1-2-IN-E-M | Contains mutations in C1-2-IN-M and additional mutations (shown) of C-rich sequences in exon 18 | ccggtgtttgcaaacatgcttcagagcaacccacgcatgctgacgtcgggcagccatcaacaggccatcgtgtcataatctacc |
| KSHV K8 exon 2 (-90) | oST1010, primer for pK8wt and pK8cct | AAGCTT/gaagtatgtgatcagtcacattct |
| KSHV K8 exon 3 (-90) | oST1011, backward primer | CAGCATGTCGCGAAGGAAAATAATC |
| Synthesized insertion for pK8wt | Contains partial wild-type sequence of KSHV K8 exon2, intron 2 and exon 3. | aattAAGCTT/Gaagtatgtgatcagtcacattctcccacgcgaaagcaaggcagatacggccgcgtgtcatcgaaagcatacacaagacagctgcagcag/gtatagacgggaaacaggtgtctatcttggccggctggttactcaaatgggaacaatggcgccaccttgctgtctttgtag/gcattagaagaaaaggatgcacaactatgtttcctagcggcgagattggaggcacataaggaacagattattttccttcgcgacatgctg/GAATTCtaa |
| Synthesized insertion for pK8ccct | Contains mutations upstream of 5′ss | aattAAGCTT/GaagtatgtgatcagtcacattctcccacgcgaaagcaaggcagatacggccCcCtgtcCtccccaCcCtCcCcaagacCCctCcCgcag/gtatagacgggaaacaggtgtctatcttggccggctggttactcaaatgggaacaatggcgccaccttgctgtctttgtag/gcattagaagaaaaggatgcacaactatgtttcctagcggcgagattggaggcacataaggaacagattattttccttcgcgacatgctg/GAATTCtaa |
| PPTC7 | Synthesized DNA template used to make Northern blot probe. | acacctgcaggctcctaacctcgttctggttccctctccgcatgccccggggatccctgcctcttcgcgtgctcccgacaccacagcccggcccaggctgcgggatcgccggccgacaggcagtcgtgagcccccagacagcccggccgtattctttcgccgcctggatggtaaccaaatcttcacccttttcggagtgtggcggtgggggctgctggcttggcgaaaaaaccctcacagcgttttctcccaaattgatcttgtccacttgcggtcacttgggggttggcagagtctccttgatccaaaatagaatggtcgagcctacttgtagattgcagccggtaaagctctgaggattggtcacagccttttcaggccacaggtgctccctgaggcctattccagttataccttttgggggtgggagactacggagagagctggcagaaagggctaaatatagttcacaagcagtcagaaactttaccataatgta |
| TMEM245 | Synthesized DNA template used to make Northern blot probe. | caggaatttggcggacattcttccaaaaagggggcgggcgtgatttgaaacagcctccctgcttttcgccttgtttcaatcctaataggccctcttagggggacagtgccctggattgagaatcgttatttcgctttgcagagagaggcctcagagcatggcagtggggcttggttttacttctggttggagagggcgggggtgcttcggccaccctcagttctgcgcatctgaatgtcagagctggaagggaccttagagattctaggccaacttgccatcctgcagataggaaaggtgacctcttaccaggctagggctacttagggacaaagaggggtttgggtgtcttagatttcttacaagtcctaaaacaaagcttgcttcactggctggtgctgcctctcagttcaggtgattcctgtataatttgtgcaaggcactgggtgctgagctgcctgtgcttcttcctctccacgctttacttttaggtaactgc |
| UNK | Synthesized DNA template used to make Northern blot probe. | tcctcagaccataaaaccacagtagtaggctcctttggggcagtgagaagtccaagacacaaccaagaggagttccgtggggtccagccccagaacccacctatgaatgatgattaacgtgaagtcctgtcaggagattccgtgcagtttgcgcaggaagccttttgtgtccctaaggctcgtaggttgtccacgagggccacacttgcttgaattcacagtcgacgtagataaacatgcaaagatggaaacgtgtccgtgcgtgcccatgaccgtttccctcgcgggctgtgcggagcctgagtctgggagcccgaaggtgatgggttccaagtatgtctgcaggctcagcagaaatgtagcattagagggagccccaaatactgacactacaggagtccagcaggatgggaaaacctcttcctggaagtcttgcatctgtgtgcttttaggtcgctgtcttcatttccttcaagccacgttaagcattccctagagt |
| PPP6C | Synthesized DNA template used to make Northern blot probe. | agggcctcccccattgccagtcgacccggtcctacccggcgtcacgccgagggtctcgcgagccgagtcgtcgaatgctgtcccggttgcctcagtggggatcccgagggatgtcgcggcctctgtcccagggtcgccccttctggccttcgggctgccccaggacccgcagctgtaacagctttatttagaaggctcggctccccaccccatccctgggtctcccgcagtcggagccgagcccccgcggcagtgccctcgggatggggtcgcctccaccggaggtgacaggagcgcggagtggccggcgtctgacaggagatgccaccggctaccggaacgcggcctcagtgtgtttaggtctctgaggaaggggaaggcggtgggcccgagtggtttggtactggcgggagcgaacgtcaggtcgtccctcttcattgccactcctccaaattgctttttaggatcgtcggttttgctaattcagaggtgaatcccg |
| β-actin | Synthesized DNA template used to make Northern blot probe. | accatggatgatgatatcgccgcgctcgtcgtcgacaacggctccggcatgtgcaaggccggcttcgcgggcgacgatgccccccgggccgtcttcccctccatcgtggggcgccccaggcaccagggcgtgatggtgggcatgggtcagaaggattcctatgtgggcgacgaggcccagagcaagagaggcatcctcaccctgaagtaccccatcgagcacggcatcgtcaccaactgggacgacatggagaaaatctggcaccacaccttctacaatgagctgcgtgtggctcccgaggagcaccccgtgctgctgaccgaggcccccctgaaccccaaggccaaccgcgagaagatgacccagatcatgtttgagaccttcaacaccccagccatgtacgttgctatccaggctgtgctatccctgtacgcctctggccgtaccactggcatcgtgatggactccggtgacggggtcacccacactgtgcccatc |
| β-globin | oST821, forward primer for cloning and RT-PCR | cacc/atggtgcatctgactcctgagga |
| β-globin | oST822, backward primer for cloning the 1.6 Kb β-globin gene | gtgatacttgtgggccagggc |
| β-globin | oST823, backward primer for RT-PCR | cctgaagttctcaggatccacgt |
Mutations are shown underlined and in boldface type.