Supplementary File 2
Table with primer sequences
This table contains a list of primers used in this study as well as a brief description of the experiment in which they were used.
|
Name/description |
Sequence (5’-3’) |
Experiment |
|
mESC Halo-mCTCF sgRNA 1: |
TGAGGCGGTTGAAGCCATTG |
Genome-editing (mESC C87 and C59) |
|
mESC Halo-mCTCF sgRNA 2: |
GGCGGTTGAAGCCATTGTGG |
Genome-editing (mESC C87 and C59) |
|
mESC Halo-mCTCF sgRNA 3: |
ACTTACCAGAGACGCCGGGA |
Genome-editing (mESC C87 and C59) |
|
mESC Halo-mCTCF sgRNA 4: |
GGCCCCCTTCCCGGCGTCTC |
Genome-editing (mESC C87 and C59) |
|
mCTCF genome F1 |
AGCACTGGTAGTTCTTTGTGGT |
Genotyping |
|
mCTCF genome R1 |
GTTGGCTTCGGAGGCTTCATA |
Genotyping |
|
Internal Halo F1 |
GTCGCGCTGGTCGAAGAATA |
Genotyping |
|
mCTCF genome F2 |
TAGCTTTCTAGTCATGCCCCAC |
Genotyping |
|
mCTCF genome R2 |
AACCTCAGACAGCAGTCCTTC |
Genotyping |
|
Internal Halo R1 |
GGGGTCGAATGGAAAGCCA |
Genotyping |
|
U2OS Halo-hCTCF sgRNA 1: |
TGCAGTCGAAGCCATTGTGG |
Genome-editing (U2OS C32) |
|
U2OS Halo-hCTCF sgRNA 2: |
TGATGCAGTCGAAGCCATTG |
Genome-editing (U2OS C32) |
|
U2OS Halo-hCTCF sgRNA 3: |
AGTTTCGGACTCCTCCACAA |
Genome-editing (U2OS C32) |
|
U2OS Halo-hCTCF sgRNA 4: |
ATAAAGGCAGGGGAAATGGA |
Genome-editing (U2OS C32) |
|
hCTCF genome F1 |
ATCTTGCAGTGTTTCCCTCGG |
Genotyping |
|
hCTCF genome R1 |
TGCCCTCCTCTGTATAACGC |
Genotyping |
|
hCTCF genome F2 |
ACTGGTTCTCCCTCCAATCAGT |
Genotyping |
|
hCTCF genome R2 |
ACGGTACCCACATAACGACCT |
Genotyping |
|
mESC mRad21-Halo/mRad21-SNAPf sgRNA 1: |
CCTCAGATAATATGGAACCG |
Genome-editing (mESC C45 and C59) |
|
mESC mRad21-Halo/mRad21-SNAPf sgRNA 2: |
CCACGGTTCCATATTATCTG |
Genome-editing (mESC C45 and C59) |
|
mESC mRad21-Halo/mRad21-SNAPf sgRNA 3: |
ATCTAGCTCCTCAGATAATA |
Genome-editing (mESC C45 and C59) |
|
mRad21 genome F1 |
ctggagcacccgtgacagttc |
Genotyping |
|
mRad21 genome R1 |
CTGAGGAGTCACGCCACTGT |
Genotyping |
|
Internal SNAPf F1 |
GAGAGCTTTACCCGCCAGG |
Genotyping |
|
mRad21 genome F2 |
GAAGTGTCAAGCCAGGGGTA |
Genotyping |
|
mRad21 genome R2 |
TGCGGTGCATAGCATCAGAG |
Genotyping |
|
Internal SNAPf R1 |
CTGTTCGCACCCAGACAGTT |
Genotyping |
|
Nanog_pos_for |
GCAGAGCCACAGAAGGAATC |
ChIP-qPCR |
|
Nanog_pos_rev |
TTGCCACCTGAAACCACATG |
ChIP-qPCR |
|
Nanog_neg_for |
CTTTGGACAGGCATCGTAGC |
ChIP-qPCR |
|
Nanog_neg_rev |
GCAGTATCTCACCATGCAGC |
ChIP-qPCR |
|
chr2qC3_pos_for |
AAGAACGCTGCTTTCATCCC |
ChIP-qPCR |
|
chr2qC3_pos_rev |
ACAGCACCTAGTCACTCCTG |
ChIP-qPCR |
|
chr2qC3_neg_for |
CACACTCCCCAAACACCAAC |
ChIP-qPCR |
|
chr2qC3_neg_rev |
ACAACCTTAAATCCCTGGCTT |
ChIP-qPCR |
|
Ctcf_mRNA_for |
CGGAACACAATGGCAAGACA |
RT-qPCR |
|
Ctcf_mRNA_rev |
TTTCTACAGCAGGCTCCTCC |
RT-qPCR |
|
Rad21_mRNA_for |
CTTCATGGTCTTCAGCGAGC |
RT-qPCR |
|
Rad21_mRNA_rev |
GTCACTGTACGGCTCTTCCT |
RT-qPCR |
|
Pou5f1_mRNA_for |
CCAGGCAGGAGCACGAGTGG |
RT-qPCR |
|
Pou5f1_mRNA_rev |
CCTGGGACTCCTCGGGAGTTG |
RT-qPCR |
|
Sox2_mRNA_for |
GAGTGGAAACTTTTGTCCGAGA |
RT-qPCR |
|
Sox2_mRNA_rev |
GAAGCGTGTACTTATCCTTCTTCAT |
RT-qPCR |
|
Nanog_mRNA_for |
CCTCAGCCTCCAGCAGATGC |
RT-qPCR |
|
Nanog_mRNA_rev |
CCGCTTGCACTTCATCCTTTG |
RT-qPCR |
|
Esrrb_mRNA_for |
GCACCTGGGCTCTAGTTGC |
RT-qPCR |
|
Esrrb_mRNA_rev |
TACAGTCCTCGTAGCTCTTGC |
RT-qPCR |
|
Klf4_mRNA_for |
CAGTGGTAAGGTTTCTCGCC |
RT-qPCR |
|
Klf4_mRNA_rev |
GCCACCCACACTTGTGACTA |
RT-qPCR |
|
Zfp42_mRNA_for |
TGTCCTCAGGCTGGGTAGTC |
RT-qPCR |
|
Zfp42_mRNA_rev |
TGATTTTCCGACGTATGCAAA |
RT-qPCR |
|
Gapdh_mRNA_for |
TGTGCAGTGCCAGCCTCGTC |
RT-qPCR |
|
Gapdh_mRNA_rev |
TGAAGGGGTCGTTGATGGCAACA |
RT-qPCR |
|
Tfcp2l1_mRNA_for |
CAGCCCGAACACTACAACCAG |
RT-qPCR |
|
Tfcp2l1_mRNA_rev |
CAGCCGGATTTCATACGACTG |
RT-qPCR |