In this section

11 rice EPO-Extended

This alignment has been generated in Ensembl Plants release 47 and is composed of 22,470 blocks (up to 401,429 bp long).

API access

This alignment set can be accessed using the Compara API via the Bio::EnsEMBL::DBSQL::MethodLinkSpeciesSetAdaptor using the method_link_type "EPO_EXTENDED" and the species_set_name "rice".

SpeciesAssemblyGenome length (bp)Genome coverage (bp)Genome coverage (%)Coding exon length (bp)Coding exon coverage (bp)Coding exon coverage (%)
Oryza sativa Japonica GroupIRGSP-1.0375,049,285298,618,58579.6234,424,45029,041,28884.36
Oryza sativa Indica GroupASM465v1427,004,890246,100,50357.6345,465,96930,406,40366.88
Oryza nivara (Oryza sativa f. spontanea)Oryza_nivara_v1.0337,950,324219,210,36864.8642,562,44430,906,40772.61
Oryza rufipogonOR_W1943338,040,714266,128,35278.7342,763,72335,080,64182.03
Oryza glumipatulaOryza_glumaepatula_v1.5372,860,283224,844,57060.3041,246,94427,921,20267.69
Oryza barthiiO.barthii_v1308,272,304236,911,27476.8539,538,50931,385,28179.38
Oryza glaberrimaOryza_glaberrima_V1316,419,574230,304,59572.7836,293,72128,004,16977.16
Oryza longistaminataO_longistaminata_v1.0326,442,508160,188,08149.0734,512,30121,955,67863.62
Oryza meridionalisOryza_meridionalis_v1.3335,668,232122,158,87136.3935,224,82415,007,30742.60
Oryza punctataOryza_punctata_v1.2393,816,603129,901,02732.9939,315,24627,651,80570.33
Oryza brachyanthaOryza_brachyantha.v1.4b260,838,16890,944,88034.8733,473,46624,247,04072.44

Block size distribution

Size range All 22,470 alignment blocks
# blocks Total size (incl. gaps)
10 bp - 100 bp
8
572.0 bp
100 bp - 1 kb
390
203.9 kb
1 kb - 10 kb
7,868
41.4 Mb
10 kb - 100 kb
12,850
438.1 Mb
100 kb - 1 Mb
1,354
216.5 Mb