Genomic tRNA Database: Bos taurus (cow) (Baylor release Btau

tRNAscan-SE Analysis of Bos taurus (cow) (Baylor release Btau_4.0 Oct 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 4112
 Selenocysteine tRNAs (TCA) 25
 Possible suppressor tRNAs (CTA,TTA) 16
 tRNAs with undetermined 
 or unknown isotypes 8
 Predicted pseudogenes 0
 Total tRNAs 4161
 
 
Intron Summary tRNAs with introns 
 56 Ala 
 AGC 
 1 Gly 
 ACC 
 2 Gly 
 GCC 
 1 Gly 
 CCC 
 5 Gly 
 TCC 
 3 Thr 
 CGT 
 1 Arg 
 TCT 
 5 Leu 
 AAG 
 1 Leu 
 CAA 
 6 Lys 
 CTT 
 1 Glu 
 CTC 
 2 Glu 
 TTC 
 1 Gln 
 CTG 
 1 Gln 
 TTG 
 1 Ile 
 TAT 
 5 Tyr 
 GTA 
 17 Cys 
 GCA 
 2 Trp 
 CCA 
 1

Four Box tRNA Sets Isotype tRNA Count by Anticodon Total
 Ala AGC 
 30 GGC 
 2 CGC 
 17 TGC 
 34 83
 Gly ACC 
 20 GCC 
 62 CCC 
 1315 TCC 
 398 1795
 Pro AGG 
 12 GGG 
   CGG 
 5 TGG 
 9 26
 Thr AGT 
 14 GGT 
 1 CGT 
 7 TGT 
 10 32
 Val AAC 
 23 GAC 
   CAC 
 45 TAC 
 22 90  Six Box tRNA Sets Isotype tRNA Count by Anticodon Total
 Ser AGA 
 14 GGA 
 30 CGA 
 7 TGA 
 6 ACT 
 4 GCT 
 18   
     
   79
 Arg ACG 
 14 GCG 
 9 CCG 
 14 TCG 
 12   
     
   CCT 
 111 TCT 
 44 204
 Leu AAG 
 11 GAG 
   CAG 
 9 TAG 
 5   
     
   CAA 
 15 TAA 
 9 49
 Two Box tRNA Sets Isotype tRNA Count by Anticodon Total
 Phe AAA 
 7 GAA 
 28   
     
   35
 Asn ATT 
   GTT 
 40   
     
   40
 Lys   
     
   CTT 
 40 TTT 
 81 121
 Asp ATC 
 6 GTC 
 48   
     
   54
 Glu   
     
   CTC 
 171 TTC 
 450 621
 His ATG 
 3 GTG 
 22   
     
   25
 Gln   
     
   CTG 
 42 TTG 
 18 60  Two Box & Other tRNA Sets Isotype tRNA Count by Anticodon Total
 Ile AAT 
 17 GAT 
     
   TAT 
 8 25
 Met   
     
   CAT 
 33   
   33
 Tyr ATA 
 10 GTA 
 38   
     
   48
 Supres   
     
   CTA 
 12 TTA 
 4 16
 Cys ACA 
 157 GCA 
 353   
     
   510
 Trp   
     
   CCA 
 182   
   182
 SelCys   
     
     
   TCA 
 25 25

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.