TY - CHAP
T1 - Sequencing-based measurements of mRNA and small RNA
AU - Nobuta, Kan
AU - Meyers, Blake C.
N1 - Publisher Copyright:
© Springer-Verlag Berlin Heidelberg 2008.
PY - 2008
Y1 - 2008
N2 - The whole-genome sequence of rice (Oryza sativa subsp. japonica cv Nipponbare) has been sequenced and the annotation of this genome has been performed and continues to be updated and improved by several organizations (Yuan et al. 2003; IRGSP 2005). In this chapter, we used the fourth annotation of the rice genome released from TIGR (The Institute of Genomic Research) to analyze our massively parallel signature sequencing (MPSS) data. In this version (TIGR v4.0), 62,827 gene models or transcription units (TUs) were identified, including 4,734 genes with multiple splice isoforms. Among the 55,890 genes, 13,237 were annotated as transposable element (TE)-related genes, while the rest (42,653) were annotated as protein-coding genes or non-TE genes.
AB - The whole-genome sequence of rice (Oryza sativa subsp. japonica cv Nipponbare) has been sequenced and the annotation of this genome has been performed and continues to be updated and improved by several organizations (Yuan et al. 2003; IRGSP 2005). In this chapter, we used the fourth annotation of the rice genome released from TIGR (The Institute of Genomic Research) to analyze our massively parallel signature sequencing (MPSS) data. In this version (TIGR v4.0), 62,827 gene models or transcription units (TUs) were identified, including 4,734 genes with multiple splice isoforms. Among the 55,890 genes, 13,237 were annotated as transposable element (TE)-related genes, while the rest (42,653) were annotated as protein-coding genes or non-TE genes.
UR - http://www.scopus.com/inward/record.url?scp=85031423677&partnerID=8YFLogxK
U2 - 10.1007/978-3-540-74250-0_3
DO - 10.1007/978-3-540-74250-0_3
M3 - Chapter
AN - SCOPUS:85031423677
T3 - Biotechnology in Agriculture and Forestry
SP - 23
EP - 36
BT - Biotechnology in Agriculture and Forestry
PB - Springer International Publishing
ER -