Table 1

5' LTR distribution and methylation analyses near CpG Island associated genes

DNA methylation analysis

LTR closest to TSS (only full-length copies)

% methylated copies

% methylated copies near CGI promoters


ETn/MusD

5' LTR (n = 2)

100

100

3' LTR (n =3)

33.3

0

IAP

5' LTR (n = 7)

100

85.7

3' LTR (n = 12)

91.6

54.5


Genome-wide analysis

LTR closest to TSS

% LTR associated with CGI promoters

P-value of equality of proportion test


IAP (n = 56)

5' LTR (n = 25)

80

0.03143

3' LTR (n = 31)

48


CGI: CpG Island; ETn/MusD: Early transposon/Mus musculus type D; IAP: Intracisternal (A) Particle; LTR: long terminal repeat; n: number of copies studied; TSS: transcription start site.

Rebollo et al. Genome Biology 2012 13:R89   doi:10.1186/gb-2012-13-10-r89

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