Table 1

Summary of information available (GeneDB) on the AT-rich repeat domains

Chromosome number

Total size of repeat domain (kb)

Unit repeat size (bp)

AT content (%)

AT-rich array position orientated by flanking ORFs


1

5.5

~30

66

Tb927.1.3670 - Tb927.1.3750

2

8.0

29

66

Tb927.2.1470 - Tb927.2.1560

3

Unknown*

120

49

Tb927.3.3410 - Tb927.3.3430

4

3.5

147

61

Tb927.4.3740 - Tb927.4.3750

5

2.3

148

62

Tb927.5.600 - Tb927.5.610

6

Unknown

~30

71

Tb927.6.180 - Tb927.6.190

7

3.0

29

75

Tb927.7.6860 - Tb927.7.6870

8

Unknown

147

59

Tb927.8.7740 - Tb927.8.7750

9

Unknown§

147

60

Incomplete assembly

10

Unknown

147

61

Incomplete assembly

11

Unknown¥

147

61

Incomplete assembly


The AT-rich repeat domains are associated with the sites of etoposide-mediated Topo-II cleavage on T. brucei chromosomes 1-8 (Additional data file 4 and summarized in Figure 6). The flanking ORFs are those immediately adjacent to the repeat array. *BAC clone RPCI93-3K10 contains a large number of 120 bp repeats that span up to 30 kb (GeneDB). This region has not yet been closed. The repeat array contains a gap of unknown size. There are 1.5 copies of this repeat next to a gap in the chromosome 8 sequence at position 2,233,104 bp. The unresolved array is estimated to be 5-9 kb (GeneDB). §Several chromosome 9 reads (approximately 700 bp) contain these repeats (for example, tryp_IXb-344h12.p1c, GeneDB). A 10 kb contig tryp_X-275g09.p1c (Tb10.v4.0130) and several chromosome 10 reads (approximately 700 bp) contain these repeats (for example, tryp_X-429d08.q1c, GeneDB). ¥A 14 kb contig tryp_XI-974h12.q1k (Tb11.1750) and several chromosome 11 reads (approximately 900 bp) contain these repeats (for example, tryp_XI-991b09.q1k, GeneDB).

Obado et al. Genome Biology 2007 8:R37   doi:10.1186/gb-2007-8-3-r37

Open Data