Table 2

Lack of spreading of DNA methylation from ERV copies into gene transcription start sites

ERV ID

Family

Type

Gene

Distance to TSS

(bp)

% ERV methylation

% Gene promoter methylation

CGI promoter?

Tissue studied


1027

ETn/MusD

Solo

Eef1e1

1266

MeDIP (see Table S1)

1.4

Yes

Spleen

2374

IAP

Full length

Gng10

2119

92

1

Yes

Spleen

3893

ETn/MusD

Full length

Mthfd2l

754

80*

0*

Yes

ES cells, embryo, brain

ti1080339794

IAP

Full length

Gdpd3

437

75.7

0

No

ES cells

4305

IAP

Solo

Hus1

1515

86

1

Yes

ES cells

8545

IAP

Full length

Pnpt1

973

95a

1*

Yes

ES cells, thymus

9963

IAP

Full length

Atxn1l

1316

97

0

Yes

Brain, liver

ti1072970530

IAP

Solo

B3galtl

368

84.1

1.4

Yes

Brain

ti1102177987

IAP

Full length

Eps15

1613

97.2

1

Yes

Brain


*Average of tissues studied. bp: base pairs; CGI: CpG Island; ERV: endogenous retrovirus; ES: embryonic stem; ETn/MusD: Early transposon/Mus musculus type D; IAP: Intracisternal (A) Particle; TSS: transcription start site.

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

Open Data