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Oryza sativa Japonica Group vs Oryza sativa (Geng/Japonica-trop2 var. Ketan Nangka) Synteny results

The syntenic regions between Oryza sativa Japonica Group (Oryza sativa Japonica Group, IRGSP-1.0) and Oryza sativa (Geng/Japonica-trop2 var. Ketan Nangka) (Oryza sativa tropical japonica subgroup, Os128077RS1) were extracted from their pairwise alignment in Ensembl Plants release 111. 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 18 synteny blocks

Genome coverage (bp) Coding exon coverage (bp)
Oryza sativa Japonica Group

Uncovered: 4,114,762 out of 375,049,285
Covered: 370,934,523 out of 375,049,285

Uncovered: 295,766 out of 34,818,902
Covered: 34,523,136 out of 34,818,902
Oryza sativa (Geng/Japonica-trop2 var. Ketan Nangka)

Uncovered: 3,798,369 out of 382,007,384
Covered: 378,209,015 out of 382,007,384

Uncovered: 273,657 out of 42,310,722
Covered: 42,037,065 out of 42,310,722