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Table 1 Genomic distribution of SIDER elements among Leishmania species

From: Organization and evolution of two SIDER retroposon subfamilies and their impact on the Leishmania genome

Species

L. major

L. infantum

L. braziliensis

 

SIDER1

(%)

SIDER2

(%)

SIDER1

(%)

SIDER2

(%)

SIDER1

(%)

SIDER2

(%)

CDS

      

   Overlapping 5'ORF

0 (0.0)

7 (0.6)

4 (0.5)

7 (0.6)

1 (0.1)

5 (0.4)

   Overlapping 3'ORF

0 (0.0)

5 (0.4)

3 (0.4)

4 (0.3)

3 (0.4)

1 (0.1)

   Embedded in ORF

3 (0.5)

4 (0.3)

21 (2.8)

13 (1.1)

9 (1.2)

30 (2.3)

"Spacer" IRa

      

   Sense

28 (4.3)

43 (3.6)

62 (8.4)

38 (3.1)

44 (6.1)

28 (2.2)

   Antisense

126 (19)

138 (11)

110 (15)

146 (12)

88 (12)

161 (13)

3'UTRb

      

   Sense

398 (61)

816 (68)

420 (57)

753 (61)

494 (69)

836 (66)

   Antisense

54 (8.3)

64 (5.3)

27 (3.6)

62 (5.0)

27 (3.7)

62 (4.9)

   Partial 3'UTRab, c

25 (3.9)

65 (5.4)

58 (7.8)

136 (11)

20 (2.8)

66 (5.2)

Strand-switchd

      

   Convergent

6 (0.9)

27 (2.2)

13 (1.8)

37 (3.0)

15 (2.1)

30 (2.3)

   Divergent

8 (1.2)

36 (3.0)

14 (1.9)

37 (3.0)

16 (2.2)

40 (3.2)

   Subtelomeric

0 (0.0)

1 (0.1)

8 (1.0)

4 (0.3)

5 (0.7)

6 (0.5)

Total number

648

1205

740

1236

721

1265

 

1853

1976

1986

  1. a SIDER sequences between the polyadenylation site and the trans-splicing site.
  2. b As predicted with PRED-A-TERM.
  3. c Polyadenylation site predicted within SIDER element.
  4. d Interstitial, non-coding regions that characterize a changing orientation of directional gene clusters.