Biological function of unannotated transcription during the early development of Drosophila melanogaster

Manak, J. R., Dike, S., Sementchenko, V., Kapranov, P., Biemar, F., Long, J., Cheng, J., Bell, I., Ghosh, S., Piccolboni, A., Gingeras, T. R. (2006) Biological function of unannotated transcription during the early development of Drosophila melanogaster. Nature Genetics, 38 (10). pp. 1151-1158. ISSN 10614036 (ISSN) (Public Dataset)

DOI: 10.1038/ng1875


Many animal and plant genomes are transcribed much more extensively than current annotations predict. However, the biological function of these unannotated transcribed regions is largely unknown. Approximately 7% and 23% of the detected transcribed nucleotides during D. melanogaster embryogenesis map to unannotated intergenic and intronic regions, respectively. Based on computational analysis of coordinated transcription, we conservatively estimate that 29% of all unannotated transcribed sequences function as missed or alternative exons of well-characterized protein-coding genes. We estimate that 15.6% of intergenic transcribed regions function as missed or alternative transcription start sites (TSS) used by 11.4% of the expressed protein-coding genes. Identification of P element mutations within or near newly identified 5′ exons provides a strategy for mapping previously uncharacterized mutations to their respective genes. Collectively, these data indicate that at least 85% of the fly genome is transcribed and processed into mature transcripts representing at least 30% of the fly genome. © 2006 Nature Publishing Group.

Item Type: Paper
Uncontrolled Keywords: Drosophila protein article controlled study Drosophila melanogaster embryo embryo development exon gene expression gene mapping gene mutation gene sequence genetic code genetic transcription genome analysis insect development mutational analysis nonhuman nucleotide sequence priority journal transcription initiation site Amino Acid Sequence Animals DNA, Intergenic Drosophila Proteins Embryo, Nonmammalian Exons Gene Expression Regulation Developmental Genome, Insect Molecular Sequence Data Mutation Oligonucleotide Array Sequence Analysis Transcription, Genetic Animalia
Subjects: bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > transcription
CSHL Authors:
Communities: CSHL labs > Gingeras lab
Depositing User: CSHL Librarian
Date: 2006
Date Deposited: 08 Mar 2012 17:07
Last Modified: 12 Jul 2013 20:19
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