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Table 1 Rtdpoz-T1 and -T2 exon assembly

From: Transcription of the rat testis-specific Rtdpoz-T1 and -T2 retrogenes during embryo development: co-transcription and frequent exonisation of transposable element sequences

Exon

 

Size (bp)

Rn_2148 position (nt)

Intron (kb)

Exon description

Previous

New

    

1a

1

169

15,707,883 – 15,707,814

39.40

Major exon 1 for T1 and T2

L1-ERV

2

 

15,668,417 – 15,666,808

31.15

nonLTR-L1 & ERV TE sequences

T2-2

3a

157

15,635,659 – 15,635,503

0.563

ERV-MT2A TE sequence

*T2–3

*4a

1,550

15,634,940 – 15,633,391

79.60

T2 coding sequence

S1hAT

5

279/36

15,553,789 – 15,550,897

9.98

Unique sequences amidst SINE/hAT

*T1–4

*6a

1,530

15,540,915 – 15,539,386

64.6

T1 coding sequence

   

(15,538,842)

 

(3' L1 extension)

T1–2

7a

73

15,474,800 – 15,474,727

0.534

Unique sequence

T1–3

8a

292

15,474,193 – 15,473,900

358.1

ERV-MT2B TE sequence

T2-2

3b

157

15,115,847 – 15,115,693

0.470

ERV-MT2A TE sequence

*T2–3

*4b

1,550

15,115,223 – 15,113,674

12.45

T2 coding sequence

T1–2

7b

73

15,101,224 – 15,101,151

0.536

Unique

T1–3

8b

292

15,100,615 – 15,100,323

4.93

ERV-MT2B TE sequence

*T1–4

*6b

2,075

15,095,393 – 15,093,863

--

T1 coding sequence

   

(15,093,321)

 

(3' L1 extension)

  1. Sequences with >98.5% identity between the T1 and T2 transcript sequences and the genomic sequence of the Rn2_2148 supercontig (NW_047626.2, RGSC v3.4) are listed. Exons are tabulated in order of appearance in the genomic sequences. Putative T1 and T2 coding exons are shown in heavy letters and are asterisked. The solid and dashed boxes denote the unique T2- and T1-specific exons, respectively, that are duplicated in different chromosomal locations. The relative exon positions are schematized in Fig. 5A.