Upcoming Ensembl Platform Transition

This is the final release of its kind on this website.

In summer 2026, this site will bring you to the new Ensembl platform currently at beta.ensembl.org.
Please bookmark this archive to retain access to the current site, tools and functionality until they are available on the new platform -> eg63-plants.ensembl.org

Ensembl Genomes HomeEnsembl Plants HomeEnsembl Plants Home ▼
More ▼
Search »

Oryza nivara vs Oryza sativa Japonica Group Synteny results

The syntenic regions between Oryza nivara (Oryza nivara, Oryza_nivara_v1.0) and Oryza sativa Japonica Group (Oryza sativa Japonica Group, IRGSP-1.0) were extracted from their pairwise alignment in Ensembl Plants release 75. We look for stretches where the alignment blocks are in synteny. The search is run in two phases. In the first one, syntenic alignments that are closer than 200 kbp are grouped. In the second phase, the groups that are in synteny are linked provided that no more than 2 non-syntenic groups are found between them and they are less than 3Mbp apart.

Configuration parameters

No configuration parameters are available.

Statistics over 511 synteny blocks

Genome coverage (bp) Coding exon coverage (bp)
Oryza nivara

Uncovered: 11,988,097 out of 337,950,324
Covered: 325,962,227 out of 337,950,324

Uncovered: 577,561 out of 42,562,444
Covered: 41,984,883 out of 42,562,444
Oryza sativa Japonica Group

Uncovered: 15,415,393 out of 375,049,285
Covered: 359,633,892 out of 375,049,285

Uncovered: 514,750 out of 34,818,902
Covered: 34,304,152 out of 34,818,902