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Items: 1 to 20 of 133

1.

GtRNAdb: a database of transfer RNA genes detected in genomic sequence.

Chan PP, Lowe TM.

Nucleic Acids Res. 2009 Jan;37(Database issue):D93-7. doi: 10.1093/nar/gkn787. Epub 2008 Nov 4.

2.

GtRNAdb 2.0: an expanded database of transfer RNA genes identified in complete and draft genomes.

Chan PP, Lowe TM.

Nucleic Acids Res. 2016 Jan 4;44(D1):D184-9. doi: 10.1093/nar/gkv1309. Epub 2015 Dec 15.

3.

Compilation of tRNA sequences and sequences of tRNA genes.

Sprinzl M, Vassilenko KS.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D139-40.

4.

Mamit-tRNA, a database of mammalian mitochondrial tRNA primary and secondary structures.

Pütz J, Dupuis B, Sissler M, Florentz C.

RNA. 2007 Aug;13(8):1184-90. Epub 2007 Jun 21.

5.

A manually curated database of tetrapod mitochondrially encoded tRNA sequences and secondary structures.

Popadin KY, Mamirova LA, Kondrashov FA.

BMC Bioinformatics. 2007 Nov 14;8:441.

6.

tRNAscan-SE On-line: integrating search and context for analysis of transfer RNA genes.

Lowe TM, Chan PP.

Nucleic Acids Res. 2016 Jul 8;44(W1):W54-7. doi: 10.1093/nar/gkw413. Epub 2016 May 12.

7.

Circular code motifs in transfer RNAs.

Michel CJ.

Comput Biol Chem. 2013 Aug;45:17-29. doi: 10.1016/j.compbiolchem.2013.02.004. Epub 2013 Mar 15.

PMID:
23727957
8.

Permuted tRNA genes in the nuclear and nucleomorph genomes of photosynthetic eukaryotes.

Maruyama S, Sugahara J, Kanai A, Nozaki H.

Mol Biol Evol. 2010 May;27(5):1070-6. doi: 10.1093/molbev/msp313. Epub 2009 Dec 18.

PMID:
20022888
9.

tRNADB-CE 2011: tRNA gene database curated manually by experts.

Abe T, Ikemura T, Sugahara J, Kanai A, Ohara Y, Uehara H, Kinouchi M, Kanaya S, Yamada Y, Muto A, Inokuchi H.

Nucleic Acids Res. 2011 Jan;39(Database issue):D210-3. doi: 10.1093/nar/gkq1007. Epub 2010 Nov 11.

10.

tRNAdb 2009: compilation of tRNA sequences and tRNA genes.

Jühling F, Mörl M, Hartmann RK, Sprinzl M, Stadler PF, Pütz J.

Nucleic Acids Res. 2009 Jan;37(Database issue):D159-62. doi: 10.1093/nar/gkn772. Epub 2008 Oct 28.

11.

tRNADB-CE: tRNA gene database curated manually by experts.

Abe T, Ikemura T, Ohara Y, Uehara H, Kinouchi M, Kanaya S, Yamada Y, Muto A, Inokuchi H.

Nucleic Acids Res. 2009 Jan;37(Database issue):D163-8. doi: 10.1093/nar/gkn692. Epub 2008 Oct 8.

12.

Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order thermoproteales.

Sugahara J, Kikuta K, Fujishima K, Yachie N, Tomita M, Kanai A.

Mol Biol Evol. 2008 Dec;25(12):2709-16. doi: 10.1093/molbev/msn216. Epub 2008 Oct 1.

PMID:
18832079
13.
14.

A unique tRNA gene family and a novel, highly expressed ORF in the mitochondrial genome of the silver-lip pearl oyster, Pinctada maxima (Bivalvia: Pteriidae).

Wu X, Li X, Li L, Yu Z.

Gene. 2012 Nov 15;510(1):22-31. doi: 10.1016/j.gene.2012.08.037. Epub 2012 Aug 31.

PMID:
22960401
15.

Selenocysteine tRNA identification in the model organisms Dictyostelium discoideum and Tetrahymena thermophila.

Shrimali RK, Lobanov AV, Xu XM, Rao M, Carlson BA, Mahadeo DC, Parent CA, Gladyshev VN, Hatfield DL.

Biochem Biophys Res Commun. 2005 Apr 1;329(1):147-51.

PMID:
15721286
16.

Compilation of tRNA sequences and sequences of tRNA genes.

Sprinzl M, Horn C, Brown M, Ioudovitch A, Steinberg S.

Nucleic Acids Res. 1998 Jan 1;26(1):148-53.

17.

SPLITS: a new program for predicting split and intron-containing tRNA genes at the genome level.

Sugahara J, Yachie N, Sekine Y, Soma A, Matsui M, Tomita M, Kanai A.

In Silico Biol. 2006;6(5):411-8.

PMID:
17274770
18.

ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences.

Laslett D, Canback B.

Nucleic Acids Res. 2004 Jan 2;32(1):11-6. Print 2004.

19.

Tri-split tRNA is a transfer RNA made from 3 transcripts that provides insight into the evolution of fragmented tRNAs in archaea.

Fujishima K, Sugahara J, Kikuta K, Hirano R, Sato A, Tomita M, Kanai A.

Proc Natl Acad Sci U S A. 2009 Feb 24;106(8):2683-7. doi: 10.1073/pnas.0808246106. Epub 2009 Feb 3.

20.

Parallel evolution of truncated transfer RNA genes in arachnid mitochondrial genomes.

Masta SE, Boore JL.

Mol Biol Evol. 2008 May;25(5):949-59. doi: 10.1093/molbev/msn051. Epub 2008 Feb 23.

PMID:
18296699

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