Table A2. .
Primer Sequences
| Sequence(5′→3′) |
||||
| Use and Primer | Forward | Reverse | Length (bp) |
Annealing Temperature (°C) |
| qPCR: | ||||
| 8920 | TGAAGGCTCTAAATCCCCAG | AGCAACCGCTAAAACCCAG | 126 | 60 |
| 8921 | GCGAGCCCGATTCTCTG | ACCAATCCTCAGGTCCAGC | 126 | 60 |
| 8922 | CTTCACTGGACCGAAACACC | TTTATCCCGATTGCTTCTGC | 135 | 60 |
| 8923 | AGCAGCCTCATGCTCTATGG | TGAAGTGTCCAGTCCAAGGC | 128 | 60 |
| 8924 | ATTTCCTCTATGGAGCGTGG | AATGGCTCCGATACACTTCC | 127 | 60 |
| 8925 | AACTGGGAAGGAGGTATCCG | AGGGAGCTCCAGCCAGC | 133 | 60 |
| 8926 | GGACCACCCTTCGGCTG | GGCTGACGATGTTCGAGG | 124 | 60 |
| 8928 | TGGTGATTACTTTTGACAGTCTTTG | GGAAAGAGTTGTAGCTCCCG | 129 | 60 |
| 8929 | CGAGTCGCTGACCAGTTACC | ATCTGCTTGTCCTGGCTGAC | 126 | 60 |
| 8930 | GACATGTGCAGCCGTGTG | ATGGGCTGTGTTGTCAAGG | 124 | 60 |
| 8932 | TTTTGGCCCAGTTTAGCC | AATATGATGGTGGCTGGCTC | 130 | 60 |
| 8933 | CTCATTCAGCCTCATCTCACC | CCTCCATGAAGGGCTAAAAC | 131 | 60 |
| 8934 | ATGCAAAATAATACCATCCAGAC | GCCACTTGTGGGAAGTGC | 137 | 60 |
| 8935 | CTTTTCATTAAATGTGCATTAACC | TCTGCAAAGCAACTGAACTG | 135 | 60 |
| 8936 | CCTCCTACTATATGAAAATTTTGGTCC | GCTGCTTAAGACTGCAAAGC | 126 | 60 |
| 8937 | TCAACTATGACAGGGTGTCTGC | CCCTTCAGAGGCAAATAATAGG | 121 | 60 |
| 8938 | AGATTTGGGCCCCTCAAC | AACAACGAGGAAGAAATATTGG | 133 | 60 |
| 8939 | GCAGCAGCAATATCCCTTTATG | GCTGGTAGTCAAGTAAGGCTTTG | 128 | 60 |
| 8940 | TGACTTAAATATCAATTGAGGATCAC | TTGAATTAACTGAAACCCAATCTC | 135 | 60 |
| 8941 | TCTGTCTCTGGATTCCTATTTGC | TCAAACACAAGTCTTGGTCTCC | 130 | 60 |
| 8942 | GGAAGATGTATTTGTCACTTTTCTTC | GCACAGTCAACCATTATTTTCTC | 132 | 60 |
| 8944 | AAAAGTGTGTGCAGAGCCAG | GATGAAGCAAGCACATAGCG | 130 | 60 |
| 8945 | ATTTGTCTTTGTCTCAATATGGG | CCCTTAGGTTCTTCACTTCCC | 130 | 60 |
| 8946 | TCACACCTTCTCTGTGGCAG | GCAAAACAAACCCCGAAAAC | 127 | 60 |
| 8948 | AAGGAAGGAGGTCTTCCAGC | CAACTTTGCAGGTACCACAGG | 118 | 60 |
| 9054 | CTTAACCTGATCACGGGGC | AACAGTGGCCTCAACTCCTC | 148 | 60 |
| 9055 | CCTTCTAGGCTCTGAAAATTGG | TGATGAATTCGAGTTTGCTG | 130 | 60 |
| 9056 | GCCCACCCTCATCTACCTG | CGACGAGGGATTGTCCTG | 136 | 60 |
| 9057 | GTCTGCAACACACTGCAACC | TGGTTTCGTGCCTGTAGTAGG | 154 | 60 |
| 9058 | TCTCTCAACTCACACGCCC | GAAACGGTGACCGCCTG | 133 | 60 |
| 9059 | CTGGACATTACACAGGCTCG | CTGCAGAATCTCTGTGGACTG | 133 | 60 |
| 9060 | GAACATCAGCAGTTGCCTTC | TCCCATGGAGATGCACATAG | 152 | 60 |
| 9061 | CTCCCGGAAGTGGGAGG | AGAGGAGAGTTGCTGGAGCC | 147 | 60 |
| 9062 | TAGATCACAGGGTCGGAAGG | CAGGGCAAGGAAGGCAG | 131 | 60 |
| 9063 | CTACCTGCGGGTCCTGG | GCCCTGAAGCAGTCCCTC | 141 | 60 |
| 9064 | TTGACTAACCTACGGCCACG | TCTTAAGGAGAAGGGGAGGG | 153 | 60 |
| 9065 | CCTGATGCTTGACTCTCCTC | GACTTTCCCTCTGCACCAAG | 125 | 60 |
| 9066 | CTCGGATTGCTCAAGGACC | ACTTTACGCTGGCAGGAGG | 136 | 60 |
| 9067 | TCACAGAGCAGCTCCCATC | GGCCACCAGGGAGATACAG | 130 | 60 |
| 9068 | GATTGGCCAGAACCCTGAG | GCGCTGCATGGTCATATTTC | 125 | 60 |
| 9069 | TGTAGCAAATGGTGGCAAAG | GAGACTATTGGCGATGCGAG | 146 | 60 |
| 9070 | TCTCCTTGTTAATCTGAGCTCTTG | GGTTATGATGTCCATCCAGG | 126 | 60 |
| 9073 | GGAAACATCACCAACAGCC | TTCAAACAAGGCAGAATACAGAC | 133 | 60 |
| 9074 | TGGAGATAGATGCCATTTGC | AGGGATCGATGTGCTAGGAG | 133 | 60 |
| 9076 | TCAGTGGAGAAGTGTGTGTGG | AATCCAAGACCCAGAAAGCC | 141 | 60 |
| 9077 | TGGGAGTTCACCTTTCTTGC | ACTTGTTGTAGCTGCCCAGG | 120 | 60 |
| 9078 | TCAACCTGAACCATTACGCC | GGTGACCAGGGTGGTGTAG | 140 | 60 |
| 9648 | AATAGCAGCTCTAAATCCCAGTC | CAGGAAGACGGGAACACAAC | 148 | 60 |
| 9649 | TGTGTTTGTCACAGCCTTGC | CTAGAGATGGACCTCCCACG | 141 | 60 |
| 9650 | GTTGAAGTACGGCCGCTG | CCTGAGAATGACTCCATGCTTC | 149 | 60 |
| 9651 | GGACTCAGTGATCAAACCCC | ATTGTTCTCAGAATGCACCC | 130 | 60 |
| 9652 | CACGATAAATTGTTTCTCTGTCC | GCGTCTCCTTGGTATGGATG | 109 | 60 |
| 9653 | ATTGCAACCAGAAGCTGGAG | TCCAGGTAAAGCAGGTCCTC | 137 | 60 |
| 9655 | GAAAGATCTCTGGGTGTCCG | AATCAGTGATGGCCATGGAG | 160 | 60 |
| 9656 | GTTCACTGCAGAGGAGGTTG | AATCTTGCCTGTTCTTTAGCG | 143 | 60 |
| 9657 | CCCCTTTGGATTAAGTTGC | ACTTCAGGGTCTGGGATGTC | 131 | 60 |
| 9820 | CAAGATGTGTCCAGACATTCCC | CATGGTGGCGTATGAACTTGG | 162 | 60 |
| 9821 | CAACCTTTTAAAACGCTTTGC | TATAGCTGCACGAATCTCCG | 119 | 60 |
| 9822 | GGTTCTTGAGTGATTAGTGTAGG | CCTCAGTTGCGAATATAAAAAGGC | 179 | 60 |
| MBD5 breakpoint determination: | ||||
| 9265 | TGCAAAACTGTGTTTATGATGTTAC | AAGTCTGTGTTAAAAGAAATTTGGTG | 131 | 60 |
| 9266 | GCTATCCCTTTAAAACTCTCACAGC | TGCTCTTTGGGAGCAATAGG | 111 | 60 |
| 9267 | TGACTTTGCTTTCCAATAACCC | CAAAACAATAACTGAAGAACTCATGG | 113 | 60 |
| 9268 | TTTCACACGTGAACCAGGC | GACCTGGGTAGAGCAGCATC | 121 | 60 |
| 9269 | TTGCATATTTTATAGGCATAGATAGC | TCCCTACTCAACACTAAAGAGCC | 134 | 60 |
| 9270 | CAGGTTGTCATCACCACTGC | GAATGACCGCACTGACAGC | 133 | 60 |
| 9271 | AAAAGGTAGGGGTTGATGCC | AATATTTGTCAAAGGTGGCCC | 140 | 60 |
| 9272 | ACAAGGGGATAACCACAGGG | TTGTCAAGAAAGCTGGGAGG | 124 | 60 |
| 9273 | CAGCCAAGCCTTAGTATAGCC | TACCTATGGCACCCTTTCCC | 124 | 60 |
| 9274 | TCCTTGTCTTGCTTTGGTTG | GACTCTACAGGTTATTTGGAGGC | 127 | 60 |
| 9348 | TCAGGGAAATGTAGGATTGC | TCTCTTCGTCTCCCTCCCTC | 133 | 60 |
| 9349 | TCATGTGTCTGATGCCTGTTTAC | TGCTGAGAACAAGGATGGC | 207 | 60 |
| 9350 | AATTTTCTCTTTCTTGACATAAATCTG | GGAAACATGCAGAACTGCTC | 132 | 60 |
| 9351 | TGCTTAAGCCACAAATCTGAAG | TTGTATGTGCACTGGAACTTG | 252 | 60 |
| 9352 | TTTCATACACAGAGGAGGAAGG | ACATGGAGGAGATGCCGTC | 136 | 60 |
| 9353 | CTAACTTTGGGAGGTGCGTC | AGGATTCATTTCCAACAGCG | 181 | 60 |
| 9354 | AGGTTAAGGCTCCCCTCCC | GTGTCTTCAACTTCTCGGGC | 142 | 60 |
| 9355 | TTGCCAGTTGAAACATTCTACC | ACAGAAGATTTGCTCCTCGC | 264 | 60 |
| MBD5 mutation screening: | ||||
| 9275 | TCATCTTATTGCTGATATCTTTGGAG | TTGCAGGTACCACAGGTAATAATAAG | 193 | 60 |
| 9276 | AAAATGCTTTTCCCTAGTGGG | GAAAAGGTAGAAAGGTGGTTTTAATG | 482 | 60 |
| 9277 | TTTTACAGACATATTCTAAACAAAGGC | GGAGAGGAGAATTCCTGAACC | 261 | 60 |
| 9278 | TCCCTCCCACCACAAAAG | GTGGGTCAGTCCTTGGAGAG | 395 | 60 |
| 9279 | GAAATCTCCATTCCGTGGC | AACATTGCTCGTGGTATTTCC | 354 | 60 |
| 9280 | TCTTTCCCCAACCTTGACTAC | GCAATGGGAGATTACTTGGC | 335 | 60 |
| 9281 | TTAATCCAACCAGTTTCCATTC | TTGGGGACCCTATTGTTGAC | 375 | 60 |
| 9282 | ATGATGCCACCTGTAGGACC | GATTTGCTAGCTGTGCTTTGG | 355 | 60 |
| 9283 | TGGGAATGCCTTTAAATCAG | TCCATTTGAGACTGTCTGAGC | 355 | 60 |
| 9284 | AGACGCATTGCGGAAAAG | GTGTTTGCATTGTGGCAGTG | 339 | 60 |
| 9285 | GCCTCAAATACTGCTTTGCC | GAAGAGAATTTCACAATGGGG | 467 | 60 |
| 9286 | TCATGATTAATAACTGGGTTTTGTG | AGTGCTGTTGGATGGAAAATG | 243 | 60 |
| 9287 | ACCCATTGGGAGTGATTTTC | AGGGTGGAGGTTGATCTCAG | 223 | 60 |
| 9288 | TCTCGGGTACAAAGAGAGGC | TTGTTTTCTTCTAAAATGACACAGC | 320 | 60 |
| 9289 | GAGGCCTCAAAATTATTTCCC | AATGGGGCTGATCTGAGTTG | 351 | 60 |
| 9290 | TTACAAAGCAGTTGTCGATGC | TGTGGCAACTTGCTGACTTG | 311 | 60 |
| 9291 | GAGGAATTCAAGAGGGGCTC | CATCTTTCCACAGTGTTCTCTAGTC | 387 | 60 |
| 9292 | CCACCAAGAAACTGTCCAGG | ATCTGAAGGGCTAGGCACAC | 315 | 60 |
| 9293 | GGAGCAGTCTCCAAGTTCC | GAACAAAGGTTAGTATTTGACAATGG | 361 | 60 |
| 9294 | TCTGGGTAATGTGGTTTGGTC | TCAGTGAGATTTCATTGTCCC | 197 | 60 |
| 9295 | TGGAATTGGTACTTTTGTTTTCTG | TTTGACAATACTCAAGAGACTTTACC | 258 | 60 |
| 9296 | TGTGATTTCATCCTCTGTTGTTG | CACTGCGCATTAGTGGAGTAG | 151 | 60 |
| 9658 | TCCCCAACCTTGACTACAAAG | AGAGCACAAGAAGGTGGAGG | 140 | 60 |
| 9659 | TCCACTTGGCATTCTTGACC | CTTGGCAAAGGAACAACAGC | 147 | 60 |
| MBD5 RT-PCR and RACE primer: | ||||
| 9432 | … | GACATTCCAAGCCACACTTGC | … | 64 |
| 9433 | … | CATGTTCCATCAGTAAGCAGG | … | 62 |
| 9434 | … | ACACGACGCTGCCAACCCAC | … | 66 |
| 9468 C1F | AGAGGTACTCCCTTATAGGG | … | … | 60 |
| 9468 C2F | GGACTCGTAAAGACATAGAGC | … | … | 60 |
| 9469 C1F | TACTCCCTTATAGGGACTCG | … | … | 60 |
| 9469 C2F | GGGACTCGTAAAGACATAGAG | … | … | 60 |
| 9470 C1F | GAAATCAAGAAGAGCACACAC | … | … | 60 |
| 9470 C1F | ACACTATTTTCCTTCATCAATCC | … | … | 60 |
| 9725 | ATGTCAGTTTCTACATGTGGG | … | … | 60 |
| 9726 | ATGTCAGTTTCTACATGTGGG | … | … | 60 |
| 9727 | GGGAAGTAGACATTGAAGGC | … | … | 60 |
| 9728 | GCCACCCGTCAGAGAGGGAC | … | … | 60 |
| 9729 | GTCAGAGAGGGACATGCGC | … | … | 60 |
| 10028 | … | GTTGACATCCTCTGTTGCCA | … | 60 |
| X inactivation: | ||||
| 8774 | TCCAGAATCTGTTCCAGAGCGTGC | GCTGTGAAGGTTGCTGTTCCTCAT | 287 | 58 |