Identification of putative transcription factor binding sites
present in 4.3kb SV.
To check the possible role of this SV in gene regulation, we analysed
the DNA sequence of the 4.3kb SV using the CiiiDER software (Gearing et
al., 2019). CiiiDER uses the MATCH algorithm to predict the
transcription factor binding sites in a query set of DNA sequences.
First, the JASPAR CORE non-redundant vertebrate transcription factors
(Mathelier et al., 2016) were used as the position frequency matrix PFM
transcription factor model. Then we selected transcript factors like
Aryl hydrocarbon receptor (Ahr), Muscle aponeurosis fibromatosis (Maf),
previously implicated in xenobiotic response (Amezian, Nauen, & Le
Goff, 2021; Kalsi & Palli, 2015).