UTRdb and UTRsite: A collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs

Nucleic Acids Research

Volumn 33, Issue DATABASE ISS., 2005, Pages

  Mignone, Flavio ^a   Grillo, Giorgio ^b   Licciulli, Flavio ^b   Iacono, Michele ^a   Liuni, Sabino ^b   Kersey, Paul J ^d   Duarte, Jorge ^d   Saccone, Cecilia ^b,c   Pesole, Graziano ^a,b  

^a UNIVERSITY OF MILAN   (Italy)

^b CNR   (Italy)

^c UNIVERSITY OF BARI   (Italy)

^d WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA;

3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; ARTICLE; CELLULAR DISTRIBUTION; EUKARYOTE; GENE EXPRESSION REGULATION; GENE FUNCTION; GENETIC CODE; GENETIC DATABASE; INFORMATION RETRIEVAL; INTERNET; NUCLEIC ACID DATABASE; NUCLEOCYTOPLASMIC TRANSPORT; PRIORITY JOURNAL; PROTEIN DATABASE; PROTEIN MOTIF; PROTEIN PROCESSING; REGULATORY RNA SEQUENCE; RNA SEQUENCE; RNA TRANSLATION; RNA TRANSPORT; SEQUENCE DATABASE; UTRDB; UTRSITE; ACCESS TO INFORMATION; CELL NUCLEUS; CYTOPLASM; GENE MAPPING; HUMAN; IRON RESPONSIVE ELEMENT; NONHUMAN; NUCLEOTIDE SEQUENCE; RNA STABILITY; RNA TRANSCRIPTION; UNTRANSLATED REGION; UNTRANSLATED REGION DATABASE; UNTRANSLATED REGION SITE DATABASE; VALIDATION STUDY;

3' UNTRANSLATED REGIONS; 5' UNTRANSLATED REGIONS; BASE SEQUENCE; DATABASES, NUCLEIC ACID; EUKARYOTIC CELLS; REGULATORY SEQUENCES, RIBONUCLEIC ACID; SYSTEMS INTEGRATION;

EUKARYOTA;

EID: 13444301473     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gki021     Document Type: Article

References (14)

1. Mignone,F., Gissi,C., Liuni,S. and Pesole,G. (2002) Untranslated regions of mRNAs. Genome Biol., 3, REVIEWS0004.
2. Pruitt,K.D., Tatusova,T. and Maglott,D.R. (2003) NCBI Reference Sequence project: update and current status. Nucleic Acids Res., 31, 34-37.
3. Toppo,S., Cannata,N., Fontana,P., Romualdi,C., Laveder,P., Bertocco,E., Lanfranchi,G. and Valle,G. (2003) TRAIT (TRAnscript Integrated Table): a knowledgebase of human skeletal muscle transcripts. Bioinformatics, 19, 661-662.
4. Pesole,G., Liuni,S., Grillo,G., Licciulli,F., Mignone,F., Gissi,C. and Saccone,C. (2002) UTRdb and UTRsite: specialized databases of sequences and functional elements of 5′ and 3′ untranslated regions of eukaryotic mRNAs. Update 2002. Nucleic Acids Res., 30 335-340.
5. Kent,W.J.(2002) BLAT - the BLAST-like alignment tool. Genome Res., 12, 656-664.
6. Wheelan,S.J., Church,D.M. and Ostell,J.M. (2001) Spidey: a tool for mRNA-to-genomic alignments. Genome Res., 11, 1952-1957.
7. Birney,E., Andrews,T.D., Bevan,P., Caccamo,M., Chen,Y., Clarke,L., Coates,G., Cuff,J., Curwen,V., Cutts,T. et al. (2004) An overview of Ensembl. Genome Res., 14, 925-928.
8. Kersey,P.J., Duarte,J., Williams,A., Karavidopoulou,Y., Birney,E. and Apweiler,R. (2004) The International Protein Index: an integrated database for proteomics experiments. Proteomics, 4 1985-1988.
9. Grillo,G., Licciulli,F., Liuni,S., Sbisa,E. and Pesole,G. (2003) PatSearch: a program for the detection of patterns and structural motifs in nucleotide sequences. Nucleic Acids Res., 31, 3608-3612.
10. Griffiths-Jones,S., BatemanA, Marshall,M., Khanna,A. and Eddy,S.R. (2003) Rfam: an RNA family database. Nucleic Acids Res., 31, 439-441.
11. Mulder,N.J., Apweiler,R., Attwood,T.K., Bairoch,A., Barrell,D., Bateman,A., Binns,D., Biswas,M., Bradley,P., Bork,P. et al. (2003) The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res., 31, 315-318.
12. Harris,M.A., Clark,J., Ireland,A., Lomax,J., Ashburner,M., Foulger,R., Eilbeck,K., Lewis,S., Marshall,B., Mungall,C. et al. (2004) The Gene Ontology (GO) database and informatics resource. Nucleic Acids Res., 32 (Database issue), D258-D261.
13. Wain,H.M., Lush,M.J., Ducluzeau,F., Khodiyar,V.K. and Povey,S. (2004) Genew: the Human Gene Nomenclature Database, 2004 updates. Nucleic Acids Res., 32 (Database issue), D255-D257.
14. Hamosh,A., Scott,A.F., Amberger,J., Bocchini,C., Valle,D. and McKusick,V.A. (2002) Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res. 30, 52-55.