Fig. 3

Genomic maps of 6 DA domains identified by neighbouring scFISH probes concordant for DA. Each map magnifies the genomic region of the DA domain from the chromosome band (red) highlighted on the chromosome ideogram. Created within the UCSC browser [40] using the GRCh37/hg19 human genome assembly, each domain is represented by turquoise and yellow bars. Yellow bars indicate the specific locations of the hybridized scFISH probes in each domain. The left margin names each track. Genomic coordinates [hg19] are provided followed by curated RefSeq genes (dark blue) and a variety of different repetitive sequences. The repeating elements (RepeatMasker) are presented in greyscale. Decreasing intensity of grey to white corresponds to increasing divergence between DNA sequences within the same family. ScFISH probes are located within regions that either have no repeating elements or divergent repeating elements (> 20% sequence divergence). Hybridized sc probes are listed left to right in panel descriptions: A XDH domain spans 25.455 kb and includes scFISH probes: XDH_tel9263, XDH_tel2386, XDH_IVS30-IVS27. B FGF6 domain spans 16.048 kb and includes scFISH probes: FGF6_tel4492, FGF6_IVS2. C COX5A domain spans 109.970 kb and includes scFISH probes: SCAMP2_IVS7-IVS4, SCAMP2_IVS1, COX5A_tel20181. D HMGB1P1 domain spans 129.583 kb and includes scFISH probes: RBM38_tel25076, CTCFL_cen34302, PCK1_cen13065, PCK1_cen209-IVS6. E TPM1 domain spans 16.034 kb and includes scFISH probes: TPM1_IVS5-IVS8, TPM1_IVS8, TPM1_tel3200. F HMGB1P5 domain spans 39.731 kb and includes scFISH probes: ZNF385D_cen640649, ZNF385D_cen678130