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Table 1 S. cerevisiae candidate snoRNAs found by Fisher for rRNA pseudouridylation sites.

From: Fisher: a program for the detection of H/ACA snoRNAs using MFE secondary structure prediction and comparative genomics – assessment and update

Candidate Detected on N Blot ψ-mapa ψ-site Chromosome Positionb Homologues detected in other yeast genomesc, d snoRNAe
       Sp Sm Sk Se Sb Cg Sc Kl Sl Kw Ag Dh Ca  
1 N 7 SSU759 XV 87507>87772 +     +          
2 Y 7 SSU759 V 52135<52357 + + +   + + + +   + +   + snR80
3 NP 13 SSU1290 IV 562489>562750 +   +            
4 N 14 SSU1415 XIII 302531>302787 + +             
5 N 14 SSU1415 XIII 556582>556828 + + +           +  
6 NP 15 LSU776 II 483358>483595 + + + +           
7 Y 15 LSU776 V 52135<52357 + + +   + + + +   + +   + snR80
8 NP 22 LSU1052 V 517714>517935 + + +            
9 NP 22 LSU1052 XV 234298>234538   + +   +          snR81
10 N 33 LSU2314 XIV 91706<91951 + + +            
11 Y 33 LSU2314 XIII 762101<762294 + + +   +      + +    snR86
12 NP 35 LSU2349 VII 316840>317063 + + +   + + +   +      snR82
13 NP 35 LSU2349 X 519129>519328 + + +   +          
14 NP 35 LSU2349 VIII 271983>272251 +   +            
  1. acorresponds to ψ-map numbering as given in Table S1, Additional file 2.
  2. b'>' indicates the candidate is on the Watson strand, and '<' indicates it is on the Crick strand in S. cerevisiae.
  3. cAbbreviations: Sp – S. paradoxus; Sm – S. mikatae; Sk – S. kudriavzevii; Se – S. exiguus; Sb – S. bayanus; Cg – C. glabrata; Sc – S. castellii; Kl – K. lactis; Sl – S. kluyveri; Kw – K. waltii; Ag – A. gossypii; Dh – D. hansenii; Ca – C. albicans.
  4. dN.B. no homologues were detected in Y. lipolytica or S. pombe, though both were screened; S. exiguus partial genome sequence from Génolevures [28].
  5. eSnoRNAs identified by snoGPS [3] or experimentally [2] which we were also able to identify using Fisher.
  6. fY: detected; N: not detected; NP: Not performed.