RNA Types | 5S rRNA, 16S rRNA, 23S rRNA, Group I intron | |
---|---|---|
Phylogenetic Groups / Cell Locations | Bacteria (nucleus), Archaea (nucleus), Eucarya (nucleus, mitochondria, and chloroplast) | |
number/type of nucleotides | structural element short name | brief explanation (if necessary) |
single nuc | total | Â |
 | paired (helix) | paired positions |
 | unpaired (loop) | unpaired positions |
 | 5' helix end | 5' end of helix |
 | 3' helix end | 3' end of helix |
 | 5' loop end | 5' end of loop |
 | 3' loop end | 3' end of loop |
 | helix center | in helix but not at the 5' or 3' ends |
 | loop center | in loop but not at the 5' or 3' ends |
 | unpaired/paired | ratio of 'unpaired' / 'paired' |
adjacent nucs | total | Â |
 | in helix | paired positions |
 | in loop | unpaired positions |
 | 3'helix 5'loop | junction: 3' end ofhelix/5' end of loop |
 | 3'loop 5'helix | junction: 3' end ofloop/5' end of helix |
 | in loop/in helix | ratio 'in loop' / 'in helix' |
base pairs | total | Â |
 | 5'helix end | at the 5' end of a helix |
 | 3'helix end | at the 3' end of a helix |
 | helix center | in helix, but not at the 5' or 3' ends |
three nucs | total | Â |
 | 000, 111,001,011,010, 100, 101,110 | 0 = unpaired, 1 = paired; patterns of three consecutive nucleotides |
 | 5'-(A:C)B | base pair with an unpaired nucleotide 3' to one paired position |
 | 5'-A(B:C) | base pair with an unpaired nucleotide 3' to one paired position |
four nucs | total | Â |
 | 0000,1111,0001, 1110,0010, 1101,0011,1100,0100, 1011, 0101,1010,0110, 1001, 1000, 0111 | 0 = unpaired, 1 = paired; patterns of four consecutive nucleotides |
 | double pair@5end | two consecutive base pairs at the 5' end of helices |
 | double pair@mid | two consecutive base pairs not at the 5' or 3'ends of helices |
 | double pair@3end | two consecutive base pairs at the 3' end of helices |
 | 5-(A:D)BC | base pair with two consecutive unpaired nucleotides 3' to one paired position |
 | lonepair | base pair with unpaired nucleotides 5' and 3' to one unpaired position |
 | 5-AB(C:D) | base pair with two consecutive unpaired nucleotides 5' to one paired position |