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Table 3 Analysis of duplicate CRP genes and CRP-like genes

From: The ribosomal protein genes and Minute loci of Drosophila melanogaster

  Gene K A /K S b cDNA clones  
  Symbola Location Comments Pair-wisec Branch-specificd Totale % testisf % Amino acid identityg
RpS5 RpS5a X: 15E5-7 - 0.07 0.09 133 1 78
  RpS5b 3R: 88D6 -   0.09 60 7  
RpS6 RpS6 X: 7C2 - NA NA 150 5 33h
  CG11386 X: 7C2 CG11386 and CG33222 are tandem repeats of the third exon and flanking regions of RpS6   NA 0 0  
  CG33222 X: 7C2    NA 3 0  
RpS10 RpS10a 3R: 98A14 Lacks introns; likely retrogene 0.10 0.15 1 0 73
  RpS10b X: 18D3 -   0.01 156 0  
RpS14 RpS14a X: 7C6-7 RpS14a and RpS14b share identical gene structures NA NA 154 2 100
  RpS14b X: 7C8    NA 12 0  
RpS15A RpS15Aa X: 11E11-12 - 0.16 0.00 150 1 98
  RpS15Ab 2R: 47C1 Lacks introns; likely retrogene   NA 67 1  
RpS19 RpS19a X: 14F4 - 0.09 0.01 134 1 65
  RpS19b 3R: 95C13 -   0.08 1 100  
RpS28 RpS28a 3R: 99D2 Lacks introns; likely retrogene 0.05 0.06 0 0 82
  RpS28b X: 8E7 -   0.00 131 1  
  RpS28-like 2L: 30B3 - NAi NA 1 0 36/37j
RpLP0 RpLP0 3L: 79B2 - NA NA 157 2 18
  RpLP0-like 2R: 46E5-6 Present in all eukaryotes   NA 11 0  
RpL7 RpL7 2L: 31B1 - NA NA 168 4 30
  RpL7-like 2L: 33C1 -   NA 32 0  
RpL10A RpL10Aa 3R: 88D10 Lacks introns; likely retrogene 0.05 0.06 7 71 64
  RpL10Ab 3L: 68E1 -   0.02 160 4  
RpL22 RpL22 X: 1C4 - NA NA 145 2 38
  RpL22-like 2R: 59D3 -   NA 5 60  
RpL24 RpL24 2L: 34B10 - NA NA 162 3 23
  RpL24-like 3R: 86E5 Present in all eukaryotes   NA 34 3  
RpL34 RpL34a 3R: 96F10 RpL34a and RpL34b share identical gene structures 0.04 0.09 56 4 78
  RpL34b 3R: 85D15    0.04 132 2  
RpL37 RpL37a X: 13B1 - 0.01 NA 158 3 72
  RpL37b 2R: 59C4 Lacks introns; likely retrogene   0.04 3 0k  
  1. aBold font indicates CRP-like genes, putative pseudogenic fragments (CG11386 and CG33222) or the member of a duplicate gene pair that is expressed in a small number of tissues and/or at relatively low levels. bK A /K S calculations are not applicable (NA) to highly diverged sequences or cases where the numbers of both synonymous and nonsynonymous substitutions are very small (<5). cCalculated for each D. melanogaster CRP gene pair using maximum likelihood analysis. Values for pairwise comparisons are shown on the first row of each pair. dBranch-specific score in a three-way maximum likelihood tree including D. pseudoobscura orthologs. A four-way tree was used for RpS19 sequences. eTotal number of cDNA clones (excluding those from cultured cell lines) given in FlyBase [60] (April 2007). RpS28-like cDNA evidence from L Crosby (personal communication). fPercentage of cDNA clones from adult testis cDNA libraries (AT, UT and BS), rounded to the nearest integer. gIdentity between proteins across their whole length. Values for pairwise comparisons are shown on the first row of each pair. hIdentity between RpS6 and the CG11386 or CG33222 protein. If CG11386 or CG33222 were used as alternative third exons of RpS6, the protein encoded would be 60% identical to the conventional RpS6 (see text for details). iRpS28-like is too highly diverged from both RpS28a and RpS28b for a pair-wise K A /K S calculation to be applicable. jIdentity between the RpS28-like protein and RpS28a/RpS28b. kThere is experimental evidence that RpL37b expression is enriched in adult testis [79].