Table 1 Primer sequences used in this study
Primer sequences for eRNA | ||
|---|---|---|
Primer | Sense | Sequence |
Gapdh (ctrl) | Sense | AAGGGCTCATGACCACAGTC |
Gapdh (ctrl) | Antisense | TGTGAGGGAGATGCTCAGTG |
e1-1 | Sense | CAATTAGAGGCAGGCAGAGTAG |
e1-1 | Antisense | AAACATAAGGCTTACCCCAGAC |
e1-2 | Sense | CTGATTGCTGACTGGTGCTT |
e1-2 | Antisense | ACAGAAGGCTGGAGACACAA |
e1-3 | Sense | CCACAGAAGGTCAGAGGTCA |
e1-3 | Antisense | CCAGGCTAGGTTGGGATAAC |
e1-4 | Sense | GCTGCGTAAGAGTGACAGGA |
e1-4 | Antisense | AAGTGCTCAGGTAGGGAAGC |
e1-5 | Sense | GGATGGGTAGGGGGTACATA |
e1-5 | Antisense | GGGGAATGGATGCTAGTAGG |
e2-1 | Sense | GTCACGAGTGCGACTACACT |
e2-1 | Antisense | ACTCACCTTGACCTGGAAGG |
e2-2 | Sense | ACCTACCTCGGTCTCTGAGT |
e2-2 | Antisense | TCATAACCACCAGACGCCTt |
e2-3 | Sense | TGTATGTTACGGGGTGGAGC |
e2-3 | Antisense | AGACCTGGGTTTGGTTCACA |
e2-4 | Sense | TTCATCAAGGAGGGACTGGG |
e2-4 | Antisense | CAAAGGAGGAACAGGTTGTGG |
e2-5 | Sense | TTGGAGATTCCTTCTCGCCA |
e2-5 | Antisense | AGGACAGCAGTCTACAGTGG |
e2-6 | Sense | AGAGCCTAGCAGCGAAGATT |
e2-6 | Antisense | TAGGGTTACGAAGCCTGAGC |
e3-1 | Sense | TTACACCAGGGAGCAGGAG |
e3-1 | Antisense | CAGACCCGTGGAAATCTTG |
e3-2 | Sense | ACCCAACCAGTGGACAGAA |
e3-2 | Antisense | CTCCTCCCAGTTCGCTCTA |
e3-3 | Sense | TTTAGATGTGGCGTCTCCAG |
e3-3 | Antisense | CCTTCAGCCTTCATTTACCAA |
e3-4 | Sense | CCACCTGTCTCACTGCTGTT |
e3-4 | Antisense | CCATGTAGCCTCCTGCTGTA |
e3-5 | Sense | ACACGCATACGCACACTCTT |
e3-5 | Antisense | AGGTTGCCATTTTGCTGAAGT |
e3-6 | Sense | GTCAAGCTACATCCAGTAAAGCT |
e3-6 | Antisense | TGGCTTCATGGTTCCTGTC |
e3-7 | Sense | CCAGGAGCCTGAAAGCTATG |
e3-7 | Antisense | ACTCATCAGCCAGTGTCACG |
e4-1 | Sense | GACTGTCTTTCCCACAGCAA |
e4-1 | Antisense | GCACACTTAGCCAAGCACAT |
e4-2 | Sense | GCTAAGTGGCTCAGAGAATGG |
e4-2 | Antisense | CCTAAATGGGTTTCCTGTGAA |
e4-3 | Sense | TTCTGCTTGGGTAAGGGAAG |
e4-3 | Antisense | TATGTGAAAGCGGATTGGAG |
e4-4 | Sense | AAGTTGCCCATAGGACAGGA |
e4-4 | Antisense | TTCCCAGTTCTGACCCAGAT |
e4-5 | Sense | TCATAAAGCCAGGCGATACAC |
e4-5 | Antisense | AGGGTCTCTTGGGATTCTCC |
e4-6 | Sense | TCGGAGTTCACACCAAACAC |
e4-6 | Antisense | GAGATGACCCATCCCTTCAG |
e4-7 | Sense | CATACACTCGGGCACTCAGT |
e4-7 | Antisense | GGTCTGGGTATTTGAAATCAGG |
e4-8 | Sense | CCACTGCTGTCACATTCCAT |
e4-8 | Antisense | CGTTCTGAATGGTTGCCAAG |
e4-9 | Sense | GAGATGCTCTCCCTCCAGAA |
e4-9 | Antisense | TCAGAGTCTGTGCCCACTGT |
e5-1 | Sense | CCAGTGTTTCAACCCTGATGT |
e5-1 | Antisense | AATTTCACGGATGGAGGAAGC |
e5-2 | Sense | CGGGCACCCAGTTAATTCAT |
e5-2 | Antisense | TCACCCCATCACAAGAATGC |
e5-3 | Sense | AGGATCAGGTTGTTGGTCTG |
e5-3 | Antisense | GGCAAGGACGAATGTAAGCA |
e5-4 | Sense | CCCTGCTAACCATTAGTGCC |
e5-4 | Antisense | TGAAGTTTGAGCCCACTTGAC |
e5-5 | Sense | CTGGCTCCTCTAACCTTTCGT |
e5-5 | Antisense | GAACACTCCCTAGAGTTTCCCTA |
e5-6 | Sense | CTGTCTTCAATCTCAAAGGGG |
e5-6 | Antisense | CTGTCTGTCATCCACGCAAT |
e6-1 | Sense | AACCGCATATACCCCGAAGA |
e6-1 | Antisense | TGTGATACTTGGACGGCAGA |
e6-2 | Sense | CAGACTAGGTCAGGCACCAA |
e6-2 | Antisense | TGACATCCATCCCATGCGTA |
e6-3 | Sense | AATGCTAACCAAGTCGCTGC |
e6-3 | Antisense | TATCCGACACCTTCACCCAC |
e6-4 | Sense | CCCCGCCCCCATTATCTTAT |
e6-4 | Antisense | TGAGTCCCACAACATCGGAA |
e6-5 | Sense | ATAGAAGTGTGAGTGCCCCC |
e6-5 | Antisense | CATCACCACGGATGCCAAAT |
e6-6 | Sense | AGCCTTAAATAACGCCCCCT |
e6-6 | Antisense | AGCATTGTTCTTTGCCCCAG |
e6-1-a | Sense | TCCACAAGAAGCTCCCAGA |
e6-1-a | Antisense | AAATACCTCCTGCTCGGCTT |
e6-1-b | Sense | GCAATGGTGTCCAAGAGTCA |
e6-1-b | Antisense | TGTGTTTGGTCAGGTCTCC |
e6-1-c | Sense | GCTCTGGCTCACTGAAGTCT |
e6-1-c | Antisense | GAACAGTCTTGGGTGTTGCG |
e6-1-d | Sense | AAGACTGGAGACCAGGCAAT |
e6-1-d | Antisense | GGGAATGGGAACGACATCT |
e6-1-e | Sense | CGTCTGGCTCAGAGAGGATT |
e6-1-e | Antisense | TACCATGAACTCCCCACCTG |
Primer sequences for 3C assays | ||
 Loading control | Sense | TTCTTGGGGTGAAGCAACACAT |
 Loading control | Antisense | ACCAGAGCAGGACCTGTTAAATG |
 e6-1-a | Sense | AGAAGCATTGACAAGCTCCGC |
 Pgam5 promoter | Antisense | GATCATGGACAGGGTAGGCAG |
Primer sequences for enhancer-reporter constructs | ||
 e6-1-a (AseI-NdeI) | Sense | TTATTAATTGGTGTGTTCGCCTTGGAAT |
 e6-1-a (AseI-NdeI) | Antisense | TTCATATGCTGTCCACCCTGGCATTTCT |
 Pgam5 promoter (NdeI-AgeI) | Sense | ATCATATGCCCTTGCCACATCCCTTTTC |
 Pgam5 promoter (NdeI-AgeI) | Antisense | TTACCGGTTTTCCCCGAAACAGCAGGAA |
 Pgam5 promoter (AseI-AgeI) | Sense | ATATTAATCCCTTGCCACATCCCTTTTC |
 Pgam5 promoter (AseI-AgeI) | Antisense | TTACCGGTTTTCCCCGAAACAGCAGGAA |
Primer sequences for qPCR | ||
 Pgam5 | Sense | CCACCTGTGTCTCACTGGAAGC |
 Pgam5 | Antisense | ACGGATGACATTGGCGTGACAT |
 Gapdh | Sense | ATGACTCTACCCACGGCAAGTT |
 Gapdh | Antisense | TCCCATTCTCAGCCTTGACTGT |