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Table 3 Distribution of putative transcriptional regulatory regions (pTRRs) identified by King et al. [26].

From: Asymmetrical distribution of non-conserved regulatory sequences at PHOX2B is reflected at the ENCODE loci and illuminates a possible genome-wide trend

Type of gene ENCODE Sub-regions Analyzed Conserved pTRRs in sub-region Non-conserved pTRRs in sub-region Base pairs in sub-region
All 5' UTR 71 46 99,440
All 3' UTR 15 12 382,329
All Intergenic Proximal 61 163 2,429,196
All Intergenic Distal 48 171 11,055,834
All Intronic Proximal 173 457 8,903,959
All Intronic Distal 55 122 6,462,925
All Coding sequences 0 0 671,166
Developmental Intergenic Proximal 20 22 392,692
Developmental Intergenic Distal 5 20 1,636,075
Non-developmental Intergenic Proximal 24 86 733,487
Non-developmental Intergenic Distal 10 51 2,309,353
Non-gene Desert Intergenic Distal 39 159 7,147,316
Gene Desert Intergenic Distal 9 12 3,908,518
Gene Desert Intergenic Proximal 0 3 75,000
Non-gene Desert Intergenic proximal 61 160 2,354,196
  1. pTRRs partitioned to ENCODE defined regions and grouped as conserved versus non-conserved based on pTRR overlap with PhastCons Placental Mammal Conserved Elements, 28-way Multiz Alignment [43]. Gene type of all represents analysis of whole ENCODE region. Developmental genes represent regions flanking genes labeled with Gene Ontology term GO:0032502, while non-developmental genes were those that were not labeled with GO:0032502. Gene deserts were ENCODE intervals overlapping regions ≥500 kb without a Reference Sequence gene. Non-gene deserts were all sub-regions that did not overlap gene deserts. The "Base pairs in sub-region" column represents the sum of the genomic intervals represented by each type of sub-regions.