Sentence examples for alignment of rice from inspiring English sources

Here, we take advantage of the natural variation of sweet and grain sorghum to uncover genes that are conserved in rice, sorghum, and sugarcane but differently expressed in sweet versus grain sorghum by using a microarray platform and the syntenous alignment of rice and sorghum genomic regions containing these genes.

The alternative splicing of the OsGELP genes was validated manually by alignment of rice FL-cDNA with genomic sequences or using RGAP Rice Genome Browser.

The sequence alignment of rice, adlay, maize, barley, sesame, and soybean in that study indicates that caleosins from monocot species possess an N-terminal appendix of 40 70 residues absent in those from dicot species.

Therefore, both maize ZEP1 and ZEP2 genes are also shown in Additional file 3, which was based on the alignment of rice and maize ZEP genes and constructed using gbioseq http://www.bioinformatics.org/project/ group_id=94.org/project/ group_id=94

Furthermore, alignment of rice and sorghum orthologous regions revealed the presence of two additional miR169 gene copies (miR169r and miR169s) on sorghum chr7 that formed an antisense miRNA gene pair.

Since it allows all the cysteine residues to be maintained in a conserved position, the HMMalign program was preferred to ClustalW and was thus used to perform the multiple alignments of rice, arabidopsis and wheat nsLTPs.

Additional file 3: The multiple alignments of rice-maize-sorghum orthologous sequences of novel exons and their concatenated flanking exons for Os08g0427300, Os01g0125900, Os05g0593300, Os11g0661400, and Os07g0648266.

The multiple alignments of rice-maize-sorghum orthologous sequences of the ExonFinder-identified exons and their concatenated flanking exons for Os08g0427300, Os01g0125900, Os05g0593300, Os11g0661400, and Os07g0648266 are available in Additional file 3. The RT-PCR and Q-RT-PCR primer pairs used in this study are listed in Additional files 7 and 8, respectively.

Sequence alignment of several rice and Arabiodpsis SMG11/D2 homologs showed that Pro in the position 74 is a conserved amino acid (Additional file 1: Figure S3).

Coding regions of the nuclear genes were either based directly on GenBank matches (DMC1) or determined using using Artemis and Artemis Comparison Tool (ACT) software [ 34, 35] on an alignment of corn, rice and sorghum sequences from GenBank (GenBank: 226502914, NC_008396 and 239825523, respectively) and representative Poa sequences (CDO504).

To facilitate such alignments, the use of rice with one of the smallest cereal genomes that has been sequenced [17] increasingly becomes the anchor genome for other grasses [28].