DnaDNA contain negative charge because the presence of phosphate group. Generally, hydrogen is not shown in DNA structure.
DNA
There are 3 hydrogens in phosphoric acid, each of them leaves as:
1 H joins with 3' -OH of previous nucleotide to form H2O$\ce{H2O}$ during DNA replication.
1 OH joins with H of next nucleotide to form H2O$\ce{H2O}$ during DNA replication.
1 H is released as H+$\ce{H+}$ (remember it was phosphoric acid), hence giving rise to the acidic character of DNA (remember it is DeoxyriboNucleic AciddeoxyriboNucleic acid).