Genomic tRNA Database: Gallus gallus (galGal3 May 2006)

tRNAscan-SE Analysis of Gallus gallus (galGal3 May 2006)

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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 241
 Selenocysteine tRNAs (TCA) 1
 Possible suppressor tRNAs (CTA,TTA) 0
 tRNAs with undetermined 
 or unknown isotypes 0
 Predicted pseudogenes 0
 Total tRNAs 242
 
 
Intron Summary tRNAs with introns 
 12 Arg 
 TCT 
 2 Leu 
 CAA 
 2 Ile 
 TAT 
 2 Tyr 
 GTA 
 6

Four Box tRNA Sets Isotype tRNA Count by Anticodon Total
 Ala AGC 
 19 GGC 
 1 CGC 
 2 TGC 
 7 29
 Gly ACC 
   GCC 
 5 CCC 
 4 TCC 
 8 17
 Pro AGG 
 6 GGG 
   CGG 
 2 TGG 
 3 11
 Thr AGT 
 4 GGT 
   CGT 
 2 TGT 
 4 10
 Val AAC 
 7 GAC 
 1 CAC 
 5 TAC 
 3 16  Six Box tRNA Sets Isotype tRNA Count by Anticodon Total
 Ser AGA 
 8 GGA 
   CGA 
 2 TGA 
 4 ACT 
   GCT 
 6   
     
   20
 Arg ACG 
 6 GCG 
   CCG 
 2 TCG 
 2   
     
   CCT 
 3 TCT 
 3 16
 Leu AAG 
 3 GAG 
   CAG 
 6 TAG 
 1   
     
   CAA 
 2 TAA 
 2 14
 Two Box tRNA Sets Isotype tRNA Count by Anticodon Total
 Phe AAA 
 1 GAA 
 9   
     
   10
 Asn ATT 
   GTT 
 9   
     
   9
 Lys   
     
   CTT 
 6 TTT 
 3 9
 Asp ATC 
   GTC 
 8   
     
   8
 Glu   
     
   CTC 
 7 TTC 
 7 14
 His ATG 
 1 GTG 
 7   
     
   8
 Gln   
     
   CTG 
 3 TTG 
 3 6  Two Box & Other tRNA Sets Isotype tRNA Count by Anticodon Total
 Ile AAT 
 7 GAT 
     
   TAT 
 2 9
 Met   
     
   CAT 
 13   
   13
 Tyr ATA 
   GTA 
 6   
     
   6
 Supres   
     
   CTA 
   TTA 
   0
 Cys ACA 
   GCA 
 10   
     
   10
 Trp   
     
   CCA 
 6   
   6
 SelCys   
     
     
   TCA 
 1 1

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.