Aeropyrum pernix sRNAs

Name
 
C Box
 
D' Box
 
C' Box
 
D Box
 
sR1 GGCGGGGCCG ATGATGA GTTCTAGCCTTA CGGA CACG TGAAGA CAGTGGCCAGGC CTGA GGATTCTCCC
sR2 GGCTAGTGGG ATGATGA CGCCGTCCCAGC ATGA AGGG TGATGA CCTCACGACGAT CTGA CCAGCACCGG
sR3 CTAGCCAGCG ATGAGGA CGGTGGAGCGACG CTGA CCAAGGTAGGGGA TGAGGA GCGACACTCCC CTGA GCACGGCCCC
sR4 TGGATGGGCG ATGAGGA TAGGCGGGCTTTT CTGA GACGTG TGATGA GTGCGGTCGTAT CCGA GTCCGGCCGG
sR5 TCGGAGGCTA GTGATGA TCCATGCAGGCC CTGA GGTCCTGCCCGCGC CGATGA AGAGCCTATGGGACTACCCT CTGA AGCCTAGGGC
sR6 GGTGGCGGCT GTGATGA CGGCTGGTATTG CCGA AGGCAGGGGCCGT TGAGGA GGGACACCAGTCT TTGA GCCGCCTTCG
sR7 TATAGGAAGT GTGATGA TTTACTCCCGGA CCGA GCAATGCTG TGAGGA CTACTTACCCGG CTGA CAGTGCTTTG
sR8 GAATCGCGGA GTGATGA GTAAGGCTGGGATTG CTGA AAGCTGTTTTG AGATGG AGCGTGATGAGCAGGG CTGA GCGCTGAACG
sR9 AGGAGAGGGG ATGGTGA GGGGTGCGAGCG CAGA GCCCCAGGGGCGG TGAAGA AGGATTATAACAGCGT CTGA CCCTCTGTAC
sR10 ATAAGGGGGC GTGATGA GGGCTTAACGG CTCA CGTTTTCT GGGAGA GTGTCGCACCT TTGA GGGCGATCAC
sR11 GGACATGCCG ATGATGT CTACTCCCGACT ACGA CACGCCGTGG GGATGA GTTGAAGGCATTTGG CTGA GGCAGCCTGG
sR12 GTATTCCCCT ATGAAGA GGAGTACATGCGGTGG TGGA AGCTCCCTTGAAGCGTGTAGGAGACCT TGAGGA CCTCGCCGGG CTGA GGGTTTTAGT
sR13 GAAGCTATGT ATGATGA CACGGGGCTTCCTCGACGCCTCCCG CAGA CGGGTGGTGTA TGAAGA AAGGTAGAGACG CTGA CTCAGAAATA
sR14 CTATATGGGC GGGATGA GGTGTGACTCCAATT CTGA GCCTCAAGGGCCG TGGGGA GATCCACCCCTAT CTGA CCGCTTCCCA
sR15 GAGCAGCGGG ATGAAGA CTACTCCCCAGA CCGA GGCAAGTCTCG AGATGA CGACAATTCCTTTAG CAGA CCGCGTCACC
sR16 GGTGCCCGGT GTGATGA ACACCTCGATCT CCGA TCGCTGGGA TGAGGA TGCGGTGGCTGT CTGA CTCTCTAGGG
sR17 TGCTGTGGGG ATGAAGA GTTCTTTGA CCGA CGCTAGTGGTA TGAGGA GGCTGAGCTACG CTGA CCCCCGGCCG
sR18 AATGTGGCCG ATGAAGA GTGGTATTACCG CCTA GTAGCGGCGATAG CGATGA CGAGGCCCCAGTG CTGA GGCCCAGGGG
sR19 AAGGGTTTGA ATGCTGA ACTATCAATACAC TAGA TAACGTGGGGA TGACGA GGCGGGCAGCCT TTGA GGACGAAGTG
sR20 TTTTGGCGGG ATGAAGA CTAGCTAACCGTGG CTCA CAGCTATG GGATGG CCTAGGGCTCTCGC CGGA CCGCCAGCCT
sR21 CCCCCCGGGA GTGATGA GGGTTAAAAGCG CCGA CTCTGGGTAGCA TGGGGA AGGCCAGGACAG CTGA CCATACCCCT
sR22 GGGTTTGGGG ATGAGGA CTCCACGGGTT CCGA CGCCCCCTCGGGGG TGGGGA CACCTGTCTCAA CTGA CCCTAGCATT
sR23 CCCTGGGCGG ATGAAGA CACTTGCCCCCAC CTGA GCCTGTG TGAAGA GATTACCGCGGACTC CAGA CGCCCTCGAC

None of the Ape predictions have been verified as RNA transcripts by primer extension. Exceptions to consensus box features shown in red. Predicted methylation guide regions with Watson-Crick/G-U base pairings to target RNAs shown in green.  Predicted terminal stem pairings shown in blue. 5' and 3' ends of sRNAs were not determined experimentally (an invariant 10 nucleotides of sequence flanking the C box and D boxes is displayed).