Genomic tRNA Database: Mus musculus (mm9 July 2007)

tRNAscan-SE Analysis of Mus musculus (mm9 July 2007)

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>> Genome Seq

tRNA Gene Summary

tRNA-derived SINEs are found in a number of eukaryotes especially mammalian genomes. After manual inspection and analysis, we apply the following filter to this genome for eliminating these tRNA-derived elements from true tRNAs. If the tRNA candidates have hits in both tRNAscan and Eufind first-pass scanners, we use a combination of at least 20 bits COVE score, 10 bits HMM score, and 5 bits 2' structure score to define a true tRNA. If the tRNA candidates only have hits in one of the first-pass scanners, the threshold of a true tRNA will be 55 bits COVE score.



tRNAs Decoding Standard 20 AA 430
 Selenocysteine tRNAs (TCA) 2
 Possible suppressor tRNAs (CTA,TTA) 1
 tRNAs with undetermined 
 or unknown isotypes 0
 Predicted pseudogenes 0
 Total tRNAs 433
 
 
Intron Summary tRNAs with introns 
 24 Ser 
 AGA 
 1 Arg 
 TCT 
 4 Leu 
 CAA 
 4 Ile 
 TAT 
 4 Met 
 CAT 
 1 Tyr 
 GTA 
 10

Four Box tRNA Sets Isotype tRNA Count by Anticodon Total
 Ala AGC 
 19 GGC 
   CGC 
 10 TGC 
 11 40
 Gly ACC 
 1 GCC 
 14 CCC 
 7 TCC 
 7 29
 Pro AGG 
 7 GGG 
   CGG 
 3 TGG 
 8 18
 Thr AGT 
 9 GGT 
   CGT 
 5 TGT 
 4 18
 Val AAC 
 8 GAC 
 1 CAC 
 11 TAC 
 3 23  Six Box tRNA Sets Isotype tRNA Count by Anticodon Total
 Ser AGA 
 9 GGA 
 1 CGA 
 3 TGA 
 3 ACT 
   GCT 
 8   
     
   24
 Arg ACG 
 6 GCG 
   CCG 
 3 TCG 
 5   
     
   CCT 
 5 TCT 
 5 24
 Leu AAG 
 8 GAG 
   CAG 
 10 TAG 
 3   
     
   CAA 
 4 TAA 
 4 29
 Two Box tRNA Sets Isotype tRNA Count by Anticodon Total
 Phe AAA 
   GAA 
 7   
     
   7
 Asn ATT 
   GTT 
 14   
     
   14
 Lys   
     
   CTT 
 19 TTT 
 11 30
 Asp ATC 
   GTC 
 16   
     
   16
 Glu   
     
   CTC 
 13 TTC 
 8 21
 His ATG 
 1 GTG 
 10   
     
   11
 Gln   
     
   CTG 
 10 TTG 
 6 16  Two Box & Other tRNA Sets Isotype tRNA Count by Anticodon Total
 Ile AAT 
 11 GAT 
 1   
   TAT 
 5 17
 Met   
     
   CAT 
 18   
   18
 Tyr ATA 
   GTA 
 10   
     
   10
 Supres   
     
   CTA 
   TTA 
 1 1
 Cys ACA 
   GCA 
 57   
     
   57
 Trp   
     
   CCA 
 8   
   8
 SelCys   
     
     
   TCA 
 2 2

The Genomic tRNA Database is curated by Todd Lowe and Patricia Chan. Please email lowe@soe.ucsc.edu with any questions and comments. To submit corrections, please use our Bug and Request Tracking System.