Table 1 |
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Summary of trans-spliced and permuted tRNAs |
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|
5' half of tRNA |
3' half of tRNA |
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|
|
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|
Organism |
tRNA isotype |
Anticodon |
5' Start |
Size (bp) Pre/Mature |
5' Start |
Size (bp) Pre/Mature |
Ligation site |
Intron position |
|
|
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|
*Aeropyrum pernix |
Asp |
GUC |
372080 (+) |
~67/40 |
372241 (+) |
~58/35 |
37/38 |
|
|
*Thermosphaera aggregans |
Asp |
GUC |
41001 (+) |
~53/40 |
41160 (-) |
~53/35 |
37/38 |
|
|
*Staphylothermus hellenicus |
Lys |
CUU |
1095046 (+) |
~48/31 |
1090266 (+) |
~65/43 |
30/31 |
|
|
*Staphylothermus marinus |
Lys |
CUU |
1279876 (-) |
~48/31 |
1284654 (-) |
~65/43 |
30/31 |
|
|
Nanoarchaeum equitans |
Lys |
CUU |
308963 (+) |
~44/32 |
380370 (-) |
~60/43 |
30/31 |
|
|
Gln |
UUG |
419223 (-) |
~49/33 |
356559 (+) |
~61/40 |
32/33 |
||
|
Glu |
CUC |
331758 (-) |
~56/40 |
487064 (-) |
~56/35 |
37/38 |
||
|
Glu |
UUC |
436673 (-) |
~56/40 |
487064 (-) |
~5635 |
37/38 |
||
|
His |
GUG |
221794 (+) |
~49/37 |
409246 (+) |
~53/36 |
37/38 |
||
|
iMet |
CAU |
35249 (+) |
~53/39 |
3254 (+) |
~5236 |
37/38 |
||
|
*Thermofilum pendens |
iMet |
CAU |
539254 (-) |
~89/75 |
539278 (-) |
~43/17 |
59/60 |
37/38 |
|
Tyr |
GUA |
892743 (+) |
~128/117 |
892725 (+) |
~34/17 |
59/60 |
37/38 |
|
|
Cyanidioschyzon merolae |
Ala |
UGC |
chr6:137501 (-) |
~63/58 |
chr6:137523 (-) |
~32/14 |
59/60 |
|
|
Arg |
CCU |
chr10:636110 (+) |
~88/85 |
chr10:636073 (+) |
~47/14 |
59/60 |
14/15 |
|
|
Lys |
UUU |
chr16:809263 (-) |
~60/57 |
chr16:809315 (-) |
~70/14 |
59/60 |
||
|
|
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|
The novel trans-spliced and permuted tRNAs identified in this study are marked by asterisks. The previously identified split tRNAs in N. equitans [4,5] and permuted tRNAs in C. merolae [9] are listed for comparison. The 5' start value represents the coordinates of the 5' start site of the mature tRNA. Pre, pre-tRNA; Mature, mature tRNA. |
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|
Chan et al. Genome Biology 2011 12:R38 doi:10.1186/gb-2011-12-4-r38 |
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