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These files contains the overview of all species in this PLAZA instance.
Additionally, extra information such as naming conventions, source information, version information, publication information, etc. are also provided.
SpeciesData File
All Species species_information.csv.gz (2.10 KB)
These files contain, per species, the structural annotation for each gene in this PLAZA instance in CSV format.
This includes gene identifier information, coordinate information, strand information, etc.
SpeciesAll transcriptsSelected transcript
Amborella trichopoda annotation.all_transcripts.atr.csv.gz (9.13 MB) annotation.selected_transcript.atr.csv.gz (9.13 MB)
Arabidopsis thaliana annotation.all_transcripts.ath.csv.gz (14.66 MB) annotation.selected_transcript.ath.csv.gz (14.66 MB)
Asterochloris sp. Cgr/DA1pho v2.0 annotation.all_transcripts.acg.csv.gz (4.66 MB) annotation.selected_transcript.acg.csv.gz (4.66 MB)
Aureococcus anophagefferens annotation.all_transcripts.aan.csv.gz (5.23 MB) annotation.selected_transcript.aan.csv.gz (5.23 MB)
Auxenochlorella protothecoides annotation.all_transcripts.apr.csv.gz (2.74 MB) annotation.selected_transcript.apr.csv.gz (2.74 MB)
Bathycoccus prasinos annotation.all_transcripts.bprrcc1105.csv.gz (3.68 MB) annotation.selected_transcript.bprrcc1105.csv.gz (3.68 MB)
Caenorhabditis elegans annotation.all_transcripts.cel.csv.gz (13.47 MB) annotation.selected_transcript.cel.csv.gz (10.38 MB)
Chlamydomonas reinhardtii annotation.all_transcripts.cre.csv.gz (12.33 MB) annotation.selected_transcript.cre.csv.gz (12.32 MB)
Chlorella sp NC64A annotation.all_transcripts.cnc64a.csv.gz (4.47 MB) annotation.selected_transcript.cnc64a.csv.gz (4.47 MB)
Chondrus crispus annotation.all_transcripts.ccr.csv.gz (3.21 MB) annotation.selected_transcript.ccr.csv.gz (3.21 MB)
Coccomyxa subellipsoidea C-169 annotation.all_transcripts.cvu.csv.gz (4.44 MB) annotation.selected_transcript.cvu.csv.gz (4.44 MB)
Cyanidioschyzon merolae annotation.all_transcripts.cme.csv.gz (2.33 MB) annotation.selected_transcript.cme.csv.gz (2.33 MB)
Dictyostelium discoideum annotation.all_transcripts.ddi.csv.gz (6.05 MB) annotation.selected_transcript.ddi.csv.gz (6.04 MB)
Drosophila melanogaster annotation.all_transcripts.drm.csv.gz (13.33 MB) annotation.selected_transcript.drm.csv.gz (7.97 MB)
Ectocarpus siliculosus annotation.all_transcripts.esi.csv.gz (8.79 MB) annotation.selected_transcript.esi.csv.gz (8.79 MB)
Emiliania huxleyi annotation.all_transcripts.emh.csv.gz (12.78 MB) annotation.selected_transcript.emh.csv.gz (12.78 MB)
Fragilariopsis cylindrus annotation.all_transcripts.fcy.csv.gz (7.03 MB) annotation.selected_transcript.fcy.csv.gz (7.03 MB)
Galdieria sulphuraria annotation.all_transcripts.gsu.csv.gz (2.73 MB) annotation.selected_transcript.gsu.csv.gz (2.73 MB)
Helicosporidium sp. annotation.all_transcripts.hsp.csv.gz (1.61 MB) annotation.selected_transcript.hsp.csv.gz (1.61 MB)
Homo sapiens annotation.all_transcripts.hom.csv.gz (50.28 MB) annotation.selected_transcript.hom.csv.gz (24.85 MB)
Micromonas pusilla strain CCMP1545 annotation.all_transcripts.mpu.csv.gz (4.70 MB) annotation.selected_transcript.mpu.csv.gz (4.70 MB)
Micromonas sp RCC299 annotation.all_transcripts.mrcc299.csv.gz (4.40 MB) annotation.selected_transcript.mrcc299.csv.gz (4.40 MB)
Mus musculus annotation.all_transcripts.mus.csv.gz (34.02 MB) annotation.selected_transcript.mus.csv.gz (19.01 MB)
Nannochloropsis gaditana annotation.all_transcripts.nga.csv.gz (4.32 MB) annotation.selected_transcript.nga.csv.gz (4.16 MB)
Oryza sativa annotation.all_transcripts.osa.csv.gz (25.07 MB) annotation.selected_transcript.osa.csv.gz (25.07 MB)
Ostreococcus lucimarinus annotation.all_transcripts.olu.csv.gz (2.84 MB) annotation.selected_transcript.olu.csv.gz (2.84 MB)
Ostreococcus mediterraneus annotation.all_transcripts.ome.csv.gz (3.34 MB) annotation.selected_transcript.ome.csv.gz (3.34 MB)
Ostreococcus sp RCC809 annotation.all_transcripts.orcc809.csv.gz (2.90 MB) annotation.selected_transcript.orcc809.csv.gz (2.90 MB)
Ostreococcus tauri annotation.all_transcripts.ota.csv.gz (3.21 MB) annotation.selected_transcript.ota.csv.gz (3.21 MB)
Paramecium tetraurelia annotation.all_transcripts.pte.csv.gz (16.93 MB) annotation.selected_transcript.pte.csv.gz (16.93 MB)
Phaeodactylum tricornutum annotation.all_transcripts.ptri.csv.gz (5.55 MB) annotation.selected_transcript.ptri.csv.gz (5.55 MB)
Physcomitrella patens annotation.all_transcripts.ppa.csv.gz (12.12 MB) annotation.selected_transcript.ppa.csv.gz (12.12 MB)
Phytophtora sojae annotation.all_transcripts.phs.csv.gz (8.69 MB) annotation.selected_transcript.phs.csv.gz (8.69 MB)
Picochlorum sp. SENEW3 (SE3) annotation.all_transcripts.pse3.csv.gz (3.03 MB) annotation.selected_transcript.pse3.csv.gz (3.03 MB)
Picochlorum_RCC4223 annotation.all_transcripts.prcc4223.csv.gz (3.63 MB) annotation.selected_transcript.prcc4223.csv.gz (3.63 MB)
Saccharomyces cerevisiae strain S288C annotation.all_transcripts.sac.csv.gz (2.70 MB) annotation.selected_transcript.sac.csv.gz (2.70 MB)
Schizosaccharomyces pombe annotation.all_transcripts.scp.csv.gz (2.86 MB) annotation.selected_transcript.scp.csv.gz (2.86 MB)
Thalassiosira pseudonana annotation.all_transcripts.tps.csv.gz (5.37 MB) annotation.selected_transcript.tps.csv.gz (5.37 MB)
Volvox carteri annotation.all_transcripts.vca.csv.gz (7.96 MB) annotation.selected_transcript.vca.csv.gz (7.96 MB)
These files contain, per species, the structural annotation for each gene in this PLAZA instance in GFF format.
This includes gene identifier information, coordinate information, strand information, etc.
SpeciesAll transcriptsSelected transcript
All featuresExon features onlyAll featuresExon features only
Amborella trichopoda File 1 (3.67 MB) File 2 (2.57 MB) File 3 (3.67 MB) File 4 (2.57 MB)
Arabidopsis thaliana File 1 (4.06 MB) File 2 (2.62 MB) File 3 (4.06 MB) File 4 (2.62 MB)
Asterochloris sp. Cgr/DA1pho v2.0 File 1 (1.99 MB) File 2 (1.44 MB) File 3 (1.99 MB) File 4 (1.44 MB)
Aureococcus anophagefferens File 1 (1020.67 KB) File 2 (751.89 KB) File 3 (1020.75 KB) File 4 (752.06 KB)
Auxenochlorella protothecoides File 1 (956.46 KB) File 2 (707.38 KB) File 3 (956.46 KB) File 4 (707.38 KB)
Bathycoccus prasinos File 1 (427.10 KB) File 2 (325.50 KB) File 3 (427.09 KB) File 4 (325.51 KB)
Caenorhabditis elegans File 1 (5.11 MB) File 2 (3.98 MB) File 3 (3.94 MB) File 4 (3.26 MB)
Chlamydomonas reinhardtii File 1 (4.23 MB) File 2 (3.02 MB) File 3 (4.23 MB) File 4 (3.02 MB)
Chlorella sp NC64A File 1 (1.87 MB) File 2 (1.32 MB) File 3 (1.87 MB) File 4 (1.32 MB)
Chondrus crispus File 1 (641.73 KB) File 2 (516.78 KB) File 3 (642.02 KB) File 4 (516.93 KB)
Coccomyxa subellipsoidea C-169 File 1 (1.94 MB) File 2 (1.41 MB) File 3 (1.94 MB) File 4 (1.41 MB)
Cyanidioschyzon merolae File 1 (253.61 KB) File 2 (207.49 KB) File 3 (253.61 KB) File 4 (207.49 KB)
Dictyostelium discoideum File 1 (1.16 MB) File 2 (951.41 KB) File 3 (1.16 MB) File 4 (950.75 KB)
Drosophila melanogaster File 1 (3.38 MB) File 2 (2.47 MB) File 3 (1.86 MB) File 4 (1.51 MB)
Ectocarpus siliculosus File 1 (3.09 MB) File 2 (2.18 MB) File 3 (3.09 MB) File 4 (2.18 MB)
Emiliania huxleyi File 1 (4.04 MB) File 2 (3.12 MB) File 3 (4.04 MB) File 4 (3.12 MB)
Fragilariopsis cylindrus File 1 (1.51 MB) File 2 (1.08 MB) File 3 (1.51 MB) File 4 (1.08 MB)
Galdieria sulphuraria File 1 (689.20 KB) File 2 (527.87 KB) File 3 (689.41 KB) File 4 (527.92 KB)
Helicosporidium sp. File 1 (479.30 KB) File 2 (363.88 KB) File 3 (479.30 KB) File 4 (363.88 KB)
Homo sapiens File 1 (20.79 MB) File 2 (16.13 MB) File 3 (7.36 MB) File 4 (6.35 MB)
Micromonas pusilla strain CCMP1545 File 1 (685.00 KB) File 2 (529.72 KB) File 3 (685.02 KB) File 4 (529.73 KB)
Micromonas sp RCC299 File 1 (783.02 KB) File 2 (546.07 KB) File 3 (782.90 KB) File 4 (546.01 KB)
Mus musculus File 1 (12.45 MB) File 2 (9.54 MB) File 3 (5.83 MB) File 4 (4.84 MB)
Nannochloropsis gaditana File 1 (941.63 KB) File 2 (728.67 KB) File 3 (915.29 KB) File 4 (712.34 KB)
Oryza sativa File 1 (5.60 MB) File 2 (4.03 MB) File 3 (5.60 MB) File 4 (4.03 MB)
Ostreococcus lucimarinus File 1 (473.22 KB) File 2 (341.02 KB) File 3 (473.23 KB) File 4 (341.02 KB)
Ostreococcus mediterraneus File 1 (442.35 KB) File 2 (342.44 KB) File 3 (442.35 KB) File 4 (342.45 KB)
Ostreococcus sp RCC809 File 1 (505.16 KB) File 2 (379.82 KB) File 3 (505.23 KB) File 4 (379.70 KB)
Ostreococcus tauri File 1 (433.17 KB) File 2 (331.52 KB) File 3 (433.18 KB) File 4 (331.53 KB)
Paramecium tetraurelia File 1 (3.93 MB) File 2 (3.03 MB) File 3 (3.93 MB) File 4 (3.03 MB)
Phaeodactylum tricornutum File 1 (786.27 KB) File 2 (563.62 KB) File 3 (786.27 KB) File 4 (563.62 KB)
Physcomitrella patens File 1 (4.84 MB) File 2 (3.51 MB) File 3 (4.84 MB) File 4 (3.51 MB)
Phytophtora sojae File 1 (1.66 MB) File 2 (1.29 MB) File 3 (1.66 MB) File 4 (1.29 MB)
Picochlorum sp. SENEW3 (SE3) File 1 (481.27 KB) File 2 (368.35 KB) File 3 (481.28 KB) File 4 (368.35 KB)
Picochlorum_RCC4223 File 1 (590.15 KB) File 2 (436.78 KB) File 3 (590.15 KB) File 4 (436.79 KB)
Saccharomyces cerevisiae strain S288C File 1 (363.03 KB) File 2 (301.95 KB) File 3 (362.94 KB) File 4 (301.99 KB)
Schizosaccharomyces pombe File 1 (477.23 KB) File 2 (389.13 KB) File 3 (477.17 KB) File 4 (389.11 KB)
Thalassiosira pseudonana File 1 (1.07 MB) File 2 (796.33 KB) File 3 (1.07 MB) File 4 (796.29 KB)
Volvox carteri File 1 (2.75 MB) File 2 (2.02 MB) File 3 (2.75 MB) File 4 (2.02 MB)
These files contain the mapping between genes and transcripts.
SpeciesAll transcriptsSelected transcript
Amborella trichopoda transcript_mapping.all_transcripts.atr.csv.gz (122.81 KB) transcript_mapping.selected_transcript.atr.csv.gz (122.82 KB)
Arabidopsis thaliana transcript_mapping.all_transcripts.ath.csv.gz (169.57 KB) transcript_mapping.selected_transcript.ath.csv.gz (169.57 KB)
Asterochloris sp. Cgr/DA1pho v2.0 transcript_mapping.all_transcripts.acg.csv.gz (50.65 KB) transcript_mapping.selected_transcript.acg.csv.gz (50.66 KB)
Aureococcus anophagefferens transcript_mapping.all_transcripts.aan.csv.gz (50.63 KB) transcript_mapping.selected_transcript.aan.csv.gz (50.63 KB)
Auxenochlorella protothecoides transcript_mapping.all_transcripts.apr.csv.gz (33.51 KB) transcript_mapping.selected_transcript.apr.csv.gz (33.51 KB)
Bathycoccus prasinos transcript_mapping.all_transcripts.bprrcc1105.csv.gz (37.65 KB) transcript_mapping.selected_transcript.bprrcc1105.csv.gz (37.66 KB)
Caenorhabditis elegans transcript_mapping.all_transcripts.cel.csv.gz (332.03 KB) transcript_mapping.selected_transcript.cel.csv.gz (274.88 KB)
Chlamydomonas reinhardtii transcript_mapping.all_transcripts.cre.csv.gz (80.34 KB) transcript_mapping.selected_transcript.cre.csv.gz (80.35 KB)
Chlorella sp NC64A transcript_mapping.all_transcripts.cnc64a.csv.gz (41.71 KB) transcript_mapping.selected_transcript.cnc64a.csv.gz (41.71 KB)
Chondrus crispus transcript_mapping.all_transcripts.ccr.csv.gz (48.09 KB) transcript_mapping.selected_transcript.ccr.csv.gz (48.09 KB)
Coccomyxa subellipsoidea C-169 transcript_mapping.all_transcripts.cvu.csv.gz (48.90 KB) transcript_mapping.selected_transcript.cvu.csv.gz (48.90 KB)
Cyanidioschyzon merolae transcript_mapping.all_transcripts.cme.csv.gz (23.16 KB) transcript_mapping.selected_transcript.cme.csv.gz (23.17 KB)
Dictyostelium discoideum transcript_mapping.all_transcripts.ddi.csv.gz (72.09 KB) transcript_mapping.selected_transcript.ddi.csv.gz (71.93 KB)
Drosophila melanogaster transcript_mapping.all_transcripts.drm.csv.gz (171.27 KB) transcript_mapping.selected_transcript.drm.csv.gz (93.76 KB)
Ectocarpus siliculosus transcript_mapping.all_transcripts.esi.csv.gz (68.32 KB) transcript_mapping.selected_transcript.esi.csv.gz (68.33 KB)
Emiliania huxleyi transcript_mapping.all_transcripts.emh.csv.gz (187.92 KB) transcript_mapping.selected_transcript.emh.csv.gz (187.92 KB)
Fragilariopsis cylindrus transcript_mapping.all_transcripts.fcy.csv.gz (80.12 KB) transcript_mapping.selected_transcript.fcy.csv.gz (80.12 KB)
Galdieria sulphuraria transcript_mapping.all_transcripts.gsu.csv.gz (36.98 KB) transcript_mapping.selected_transcript.gsu.csv.gz (36.99 KB)
Helicosporidium sp. transcript_mapping.all_transcripts.hsp.csv.gz (29.40 KB) transcript_mapping.selected_transcript.hsp.csv.gz (29.41 KB)
Homo sapiens transcript_mapping.all_transcripts.hom.csv.gz (1.10 MB) transcript_mapping.selected_transcript.hom.csv.gz (394.50 KB)
Micromonas pusilla strain CCMP1545 transcript_mapping.all_transcripts.mpu.csv.gz (42.84 KB) transcript_mapping.selected_transcript.mpu.csv.gz (42.84 KB)
Micromonas sp RCC299 transcript_mapping.all_transcripts.mrcc299.csv.gz (45.25 KB) transcript_mapping.selected_transcript.mrcc299.csv.gz (45.25 KB)
Mus musculus transcript_mapping.all_transcripts.mus.csv.gz (600.12 KB) transcript_mapping.selected_transcript.mus.csv.gz (274.62 KB)
Nannochloropsis gaditana transcript_mapping.all_transcripts.nga.csv.gz (56.39 KB) transcript_mapping.selected_transcript.nga.csv.gz (53.73 KB)
Oryza sativa transcript_mapping.all_transcripts.osa.csv.gz (283.66 KB) transcript_mapping.selected_transcript.osa.csv.gz (283.66 KB)
Ostreococcus lucimarinus transcript_mapping.all_transcripts.olu.csv.gz (33.03 KB) transcript_mapping.selected_transcript.olu.csv.gz (33.03 KB)
Ostreococcus mediterraneus transcript_mapping.all_transcripts.ome.csv.gz (33.76 KB) transcript_mapping.selected_transcript.ome.csv.gz (33.77 KB)
Ostreococcus sp RCC809 transcript_mapping.all_transcripts.orcc809.csv.gz (33.21 KB) transcript_mapping.selected_transcript.orcc809.csv.gz (33.22 KB)
Ostreococcus tauri transcript_mapping.all_transcripts.ota.csv.gz (32.57 KB) transcript_mapping.selected_transcript.ota.csv.gz (32.57 KB)
Paramecium tetraurelia transcript_mapping.all_transcripts.pte.csv.gz (193.51 KB) transcript_mapping.selected_transcript.pte.csv.gz (193.52 KB)
Phaeodactylum tricornutum transcript_mapping.all_transcripts.ptri.csv.gz (51.73 KB) transcript_mapping.selected_transcript.ptri.csv.gz (51.74 KB)
Physcomitrella patens transcript_mapping.all_transcripts.ppa.csv.gz (135.66 KB) transcript_mapping.selected_transcript.ppa.csv.gz (135.66 KB)
Phytophtora sojae transcript_mapping.all_transcripts.phs.csv.gz (95.57 KB) transcript_mapping.selected_transcript.phs.csv.gz (95.58 KB)
Picochlorum sp. SENEW3 (SE3) transcript_mapping.all_transcripts.pse3.csv.gz (35.07 KB) transcript_mapping.selected_transcript.pse3.csv.gz (35.07 KB)
Picochlorum_RCC4223 transcript_mapping.all_transcripts.prcc4223.csv.gz (47.73 KB) transcript_mapping.selected_transcript.prcc4223.csv.gz (47.73 KB)
Saccharomyces cerevisiae strain S288C transcript_mapping.all_transcripts.sac.csv.gz (34.56 KB) transcript_mapping.selected_transcript.sac.csv.gz (34.56 KB)
Schizosaccharomyces pombe transcript_mapping.all_transcripts.scp.csv.gz (32.78 KB) transcript_mapping.selected_transcript.scp.csv.gz (32.76 KB)
Thalassiosira pseudonana transcript_mapping.all_transcripts.tps.csv.gz (50.56 KB) transcript_mapping.selected_transcript.tps.csv.gz (50.56 KB)
Volvox carteri transcript_mapping.all_transcripts.vca.csv.gz (72.30 KB) transcript_mapping.selected_transcript.vca.csv.gz (72.30 KB)
These files contain, per species, the gene identifiers and descriptions available for each gene in this PLAZA instance.
Many genes are known by their aliases (e.g. E2F3 for AT2G36010). These files contain this kind of identifier mappings.
SpeciesIdentifiersDescriptions
Amborella trichopoda id_conversion.atr.csv.gz (258.00 B) gene_description.atr.csv.gz (261.00 B)
Arabidopsis thaliana id_conversion.ath.csv.gz (266.00 B) gene_description.ath.csv.gz (269.00 B)
Asterochloris sp. Cgr/DA1pho v2.0 id_conversion.acg.csv.gz (112.64 KB) gene_description.acg.csv.gz (321.00 B)
Aureococcus anophagefferens id_conversion.aan.csv.gz (134.69 KB) gene_description.aan.csv.gz (131.88 KB)
Auxenochlorella protothecoides id_conversion.apr.csv.gz (35.58 KB) gene_description.apr.csv.gz (71.20 KB)
Bathycoccus prasinos id_conversion.bprrcc1105.csv.gz (40.34 KB) gene_description.bprrcc1105.csv.gz (56.47 KB)
Caenorhabditis elegans id_conversion.cel.csv.gz (262.70 KB) gene_description.cel.csv.gz (296.00 B)
Chlamydomonas reinhardtii id_conversion.cre.csv.gz (295.59 KB) gene_description.cre.csv.gz (319.00 B)
Chlorella sp NC64A id_conversion.cnc64a.csv.gz (114.40 KB) gene_description.cnc64a.csv.gz (115.00 KB)
Chondrus crispus id_conversion.ccr.csv.gz (151.92 KB) gene_description.ccr.csv.gz (22.65 KB)
Coccomyxa subellipsoidea C-169 id_conversion.cvu.csv.gz (127.06 KB) gene_description.cvu.csv.gz (331.00 B)
Cyanidioschyzon merolae id_conversion.cme.csv.gz (27.39 KB) gene_description.cme.csv.gz (74.47 KB)
Dictyostelium discoideum id_conversion.ddi.csv.gz (137.93 KB) gene_description.ddi.csv.gz (57.86 KB)
Drosophila melanogaster id_conversion.drm.csv.gz (233.72 KB) gene_description.drm.csv.gz (77.31 KB)
Ectocarpus siliculosus id_conversion.esi.csv.gz (105.73 KB) gene_description.esi.csv.gz (127.21 KB)
Emiliania huxleyi id_conversion.emh.csv.gz (602.32 KB) gene_description.emh.csv.gz (150.11 KB)
Fragilariopsis cylindrus id_conversion.fcy.csv.gz (211.92 KB) gene_description.fcy.csv.gz (114.30 KB)
Galdieria sulphuraria id_conversion.gsu.csv.gz (109.00 KB) gene_description.gsu.csv.gz (64.98 KB)
Helicosporidium sp. id_conversion.hsp.csv.gz (32.29 KB) gene_description.hsp.csv.gz (33.36 KB)
Homo sapiens id_conversion.hom.csv.gz (497.00 KB) gene_description.hom.csv.gz (520.26 KB)
Micromonas pusilla strain CCMP1545 id_conversion.mpu.csv.gz (50.17 KB) gene_description.mpu.csv.gz (38.48 KB)
Micromonas sp RCC299 id_conversion.mrcc299.csv.gz (128.16 KB) gene_description.mrcc299.csv.gz (110.92 KB)
Mus musculus id_conversion.mus.csv.gz (437.07 KB) gene_description.mus.csv.gz (469.41 KB)
Nannochloropsis gaditana id_conversion.nga.csv.gz (106.41 KB) gene_description.nga.csv.gz (98.44 KB)
Oryza sativa id_conversion.osa.csv.gz (274.00 B) gene_description.osa.csv.gz (277.00 B)
Ostreococcus lucimarinus id_conversion.olu.csv.gz (51.07 KB) gene_description.olu.csv.gz (125.59 KB)
Ostreococcus mediterraneus id_conversion.ome.csv.gz (40.35 KB) gene_description.ome.csv.gz (78.41 KB)
Ostreococcus sp RCC809 id_conversion.orcc809.csv.gz (90.79 KB) gene_description.orcc809.csv.gz (88.77 KB)
Ostreococcus tauri id_conversion.ota.csv.gz (38.96 KB) gene_description.ota.csv.gz (79.75 KB)
Paramecium tetraurelia id_conversion.pte.csv.gz (588.61 KB) gene_description.pte.csv.gz (304.00 B)
Phaeodactylum tricornutum id_conversion.ptri.csv.gz (5.19 KB) gene_description.ptri.csv.gz (295.00 B)
Physcomitrella patens id_conversion.ppa.csv.gz (519.86 KB) gene_description.ppa.csv.gz (221.58 KB)
Phytophtora sojae id_conversion.phs.csv.gz (159.56 KB) gene_description.phs.csv.gz (4.84 KB)
Picochlorum sp. SENEW3 (SE3) id_conversion.pse3.csv.gz (40.45 KB) gene_description.pse3.csv.gz (299.00 B)
Picochlorum_RCC4223 id_conversion.prcc4223.csv.gz (262.00 B) gene_description.prcc4223.csv.gz (265.00 B)
Saccharomyces cerevisiae strain S288C id_conversion.sac.csv.gz (109.57 KB) gene_description.sac.csv.gz (416.02 KB)
Schizosaccharomyces pombe id_conversion.scp.csv.gz (59.83 KB) gene_description.scp.csv.gz (82.09 KB)
Thalassiosira pseudonana id_conversion.tps.csv.gz (166.82 KB) gene_description.tps.csv.gz (97.92 KB)
Volvox carteri id_conversion.vca.csv.gz (245.38 KB) gene_description.vca.csv.gz (315.00 B)
These files contain, per species, the functional annotation of the genes within this PLAZA instance.

This information is limited to the annotation of the genes.
For the associated ontologies (such as parent-child relationships between the various terms), you can find the necessary information here:
SpeciesGene OntologyInterProMapMan
Amborella trichopoda go.atr.csv.gz (2.76 MB) interpro.atr.csv.gz (1.77 MB) mapman.atr.csv.gz (258.00 B)
Arabidopsis thaliana go.ath.csv.gz (15.58 MB) interpro.ath.csv.gz (1.81 MB) mapman.ath.csv.gz (265.00 B)
Asterochloris sp. Cgr/DA1pho v2.0 go.acg.csv.gz (1.38 MB) interpro.acg.csv.gz (861.52 KB) mapman.acg.csv.gz (317.00 B)
Aureococcus anophagefferens go.aan.csv.gz (1.61 MB) interpro.aan.csv.gz (1.07 MB) mapman.aan.csv.gz (294.00 B)
Auxenochlorella protothecoides go.apr.csv.gz (1023.75 KB) interpro.apr.csv.gz (614.19 KB) mapman.apr.csv.gz (308.00 B)
Bathycoccus prasinos go.bprrcc1105.csv.gz (1.16 MB) interpro.bprrcc1105.csv.gz (729.66 KB) mapman.bprrcc1105.csv.gz (299.00 B)
Caenorhabditis elegans go.cel.csv.gz (5.85 MB) interpro.cel.csv.gz (1.11 MB) mapman.cel.csv.gz (292.00 B)
Chlamydomonas reinhardtii go.cre.csv.gz (1.90 MB) interpro.cre.csv.gz (1.22 MB) mapman.cre.csv.gz (316.00 B)
Chlorella sp NC64A go.cnc64a.csv.gz (1.37 MB) interpro.cnc64a.csv.gz (876.87 KB) mapman.cnc64a.csv.gz (312.00 B)
Chondrus crispus go.ccr.csv.gz (1.10 MB) interpro.ccr.csv.gz (645.58 KB) mapman.ccr.csv.gz (316.00 B)
Coccomyxa subellipsoidea C-169 go.cvu.csv.gz (1.32 MB) interpro.cvu.csv.gz (829.89 KB) mapman.cvu.csv.gz (326.00 B)
Cyanidioschyzon merolae go.cme.csv.gz (926.66 KB) interpro.cme.csv.gz (478.82 KB) mapman.cme.csv.gz (280.00 B)
Dictyostelium discoideum go.ddi.csv.gz (48.88 KB) interpro.ddi.csv.gz (727.80 KB) mapman.ddi.csv.gz (305.00 B)
Drosophila melanogaster go.drm.csv.gz (11.51 MB) interpro.drm.csv.gz (1.38 MB) mapman.drm.csv.gz (293.00 B)
Ectocarpus siliculosus go.esi.csv.gz (1.76 MB) interpro.esi.csv.gz (1.24 MB) mapman.esi.csv.gz (288.00 B)
Emiliania huxleyi go.emh.csv.gz (254.14 KB) interpro.emh.csv.gz (1.53 MB) mapman.emh.csv.gz (300.00 B)
Fragilariopsis cylindrus go.fcy.csv.gz (1.47 MB) interpro.fcy.csv.gz (941.96 KB) mapman.fcy.csv.gz (288.00 B)
Galdieria sulphuraria go.gsu.csv.gz (1.14 MB) interpro.gsu.csv.gz (642.36 KB) mapman.gsu.csv.gz (322.00 B)
Helicosporidium sp. go.hsp.csv.gz (707.40 KB) interpro.hsp.csv.gz (375.82 KB) mapman.hsp.csv.gz (318.00 B)
Homo sapiens go.hom.csv.gz (26.96 MB) interpro.hom.csv.gz (2.17 MB) mapman.hom.csv.gz (285.00 B)
Micromonas pusilla strain CCMP1545 go.mpu.csv.gz (1.32 MB) interpro.mpu.csv.gz (905.15 KB) mapman.mpu.csv.gz (302.00 B)
Micromonas sp RCC299 go.mrcc299.csv.gz (1.39 MB) interpro.mrcc299.csv.gz (923.10 KB) mapman.mrcc299.csv.gz (300.00 B)
Mus musculus go.mus.csv.gz (29.14 MB) interpro.mus.csv.gz (1.99 MB) mapman.mus.csv.gz (282.00 B)
Nannochloropsis gaditana go.nga.csv.gz (2.37 KB) interpro.nga.csv.gz (510.81 KB) mapman.nga.csv.gz (323.00 B)
Oryza sativa go.osa.csv.gz (3.97 MB) interpro.osa.csv.gz (2.57 MB) mapman.osa.csv.gz (272.00 B)
Ostreococcus lucimarinus go.olu.csv.gz (1.16 MB) interpro.olu.csv.gz (703.86 KB) mapman.olu.csv.gz (297.00 B)
Ostreococcus mediterraneus go.ome.csv.gz (1.14 MB) interpro.ome.csv.gz (720.93 KB) mapman.ome.csv.gz (286.00 B)
Ostreococcus sp RCC809 go.orcc809.csv.gz (1.12 MB) interpro.orcc809.csv.gz (700.06 KB) mapman.orcc809.csv.gz (301.00 B)
Ostreococcus tauri go.ota.csv.gz (1.13 MB) interpro.ota.csv.gz (700.92 KB) mapman.ota.csv.gz (294.00 B)
Paramecium tetraurelia go.pte.csv.gz (79.41 KB) interpro.pte.csv.gz (1.68 MB) mapman.pte.csv.gz (300.00 B)
Phaeodactylum tricornutum go.ptri.csv.gz (2.82 MB) interpro.ptri.csv.gz (1.49 MB) mapman.ptri.csv.gz (291.00 B)
Physcomitrella patens go.ppa.csv.gz (7.44 MB) interpro.ppa.csv.gz (4.27 MB) mapman.ppa.csv.gz (281.00 B)
Phytophtora sojae go.phs.csv.gz (1.88 MB) interpro.phs.csv.gz (1.32 MB) mapman.phs.csv.gz (304.00 B)
Picochlorum sp. SENEW3 (SE3) go.pse3.csv.gz (1.14 MB) interpro.pse3.csv.gz (696.73 KB) mapman.pse3.csv.gz (294.00 B)
Picochlorum_RCC4223 go.prcc4223.csv.gz (1.39 MB) interpro.prcc4223.csv.gz (820.58 KB) mapman.prcc4223.csv.gz (261.00 B)
Saccharomyces cerevisiae strain S288C go.sac.csv.gz (17.62 KB) interpro.sac.csv.gz (436.86 KB) mapman.sac.csv.gz (301.00 B)
Schizosaccharomyces pombe go.scp.csv.gz (4.81 MB) interpro.scp.csv.gz (398.53 KB) mapman.scp.csv.gz (307.00 B)
Thalassiosira pseudonana go.tps.csv.gz (2.30 MB) interpro.tps.csv.gz (787.78 KB) mapman.tps.csv.gz (284.00 B)
Volvox carteri go.vca.csv.gz (1.48 MB) interpro.vca.csv.gz (942.38 KB) mapman.vca.csv.gz (311.00 B)
These files contain the genomic sequences for each of the organisms present in this PLAZA instance.
SpeciesGenome
Amborella trichopoda atr.fasta.gz (82.29 MB)
Arabidopsis thaliana ath.fasta.gz (34.28 MB)
Asterochloris sp. Cgr/DA1pho v2.0 acg.fasta.gz (16.04 MB)
Aureococcus anophagefferens aan.fasta.gz (14.23 MB)
Auxenochlorella protothecoides apr.fasta.gz (6.13 MB)
Bathycoccus prasinos bprrcc1105.fasta.gz (4.36 MB)
Caenorhabditis elegans cel.fasta.gz (28.50 MB)
Chlamydomonas reinhardtii cre.fasta.gz (29.48 MB)
Chlorella sp NC64A cnc64a.fasta.gz (12.02 MB)
Chondrus crispus ccr.fasta.gz (30.15 MB)
Coccomyxa subellipsoidea C-169 cvu.fasta.gz (14.39 MB)
Cyanidioschyzon merolae cme.fasta.gz (4.87 MB)
Dictyostelium discoideum ddi.fasta.gz (8.88 MB)
Drosophila melanogaster drm.fasta.gz (40.62 MB)
Ectocarpus siliculosus esi.fasta.gz (55.73 MB)
Emiliania huxleyi emh.fasta.gz (43.84 MB)
Fragilariopsis cylindrus fcy.fasta.gz (22.24 MB)
Galdieria sulphuraria gsu.fasta.gz (3.92 MB)
Helicosporidium sp. hsp.fasta.gz (3.66 MB)
Homo sapiens hom.fasta.gz (859.31 MB)
Micromonas pusilla strain CCMP1545 mpu.fasta.gz (6.03 MB)
Micromonas sp RCC299 mrcc299.fasta.gz (6.03 MB)
Mus musculus mus.fasta.gz (760.42 MB)
Nannochloropsis gaditana nga.fasta.gz (8.01 MB)
Oryza sativa osa.fasta.gz (107.22 MB)
Ostreococcus lucimarinus olu.fasta.gz (3.78 MB)
Ostreococcus mediterraneus ome.fasta.gz (3.90 MB)
Ostreococcus sp RCC809 orcc809.fasta.gz (3.79 MB)
Ostreococcus tauri ota.fasta.gz (3.63 MB)
Paramecium tetraurelia pte.fasta.gz (20.43 MB)
Phaeodactylum tricornutum ptri.fasta.gz (7.95 MB)
Physcomitrella patens ppa.fasta.gz (130.26 MB)
Phytophtora sojae phs.fasta.gz (22.89 MB)
Picochlorum sp. SENEW3 (SE3) pse3.fasta.gz (3.96 MB)
Picochlorum_RCC4223 prcc4223.fasta.gz (4.18 MB)
Saccharomyces cerevisiae strain S288C sac.fasta.gz (3.56 MB)
Schizosaccharomyces pombe scp.fasta.gz (3.69 MB)
Thalassiosira pseudonana tps.fasta.gz (30.00 B)
Volvox carteri vca.fasta.gz (29.41 MB)
These files contain sequences for each locus/transcript for each of the organisms in this PLAZA instance.

  • CDS: Coding Sequences. The concatenated exonic DNA sequence per locus/transcript (coding genes only), from start codon to stop codon.
  • Transcript: Transcript sequences. The spliced transcribed DNA sequence per locus/transcript (all gene types). Contains UTR regions.
  • Protein: Amino Acid Sequences. The translated coding sequence per gene, using the appropriate translation table
SpeciesCDS filesTranscript filesProtein files
All transcriptsSelected transcriptAll transcriptsSelected transcriptAll transcriptsSelected transcript
Amborella trichopoda File 1 (7.19 MB) File 2 (7.19 MB) Not Available Not Available File 5 (4.82 MB) File 6 (4.82 MB)
Arabidopsis thaliana File 1 (9.32 MB) File 2 (9.32 MB) Not Available Not Available File 5 (6.26 MB) File 6 (6.26 MB)
Asterochloris sp. Cgr/DA1pho v2.0 File 1 (3.63 MB) File 2 (3.63 MB) Not Available Not Available File 5 (2.49 MB) File 6 (2.49 MB)
Aureococcus anophagefferens File 1 (4.73 MB) File 2 (4.73 MB) Not Available Not Available File 5 (3.29 MB) File 6 (3.29 MB)
Auxenochlorella protothecoides File 1 (2.24 MB) File 2 (2.24 MB) Not Available Not Available File 5 (1.53 MB) File 6 (1.53 MB)
Bathycoccus prasinos File 1 (3.44 MB) File 2 (3.44 MB) Not Available Not Available File 5 (2.33 MB) File 6 (2.33 MB)
Caenorhabditis elegans File 1 (9.50 MB) File 2 (7.02 MB) Not Available Not Available File 5 (6.28 MB) File 6 (4.73 MB)
Chlamydomonas reinhardtii File 1 (10.16 MB) File 2 (10.16 MB) Not Available Not Available File 5 (6.69 MB) File 6 (6.69 MB)
Chlorella sp NC64A File 1 (3.54 MB) File 2 (3.54 MB) Not Available Not Available File 5 (2.43 MB) File 6 (2.43 MB)
Chondrus crispus File 1 (2.90 MB) File 2 (2.90 MB) Not Available Not Available File 5 (1.95 MB) File 6 (1.95 MB)
Coccomyxa subellipsoidea C-169 File 1 (3.45 MB) File 2 (3.45 MB) Not Available Not Available File 5 (2.34 MB) File 6 (2.34 MB)
Cyanidioschyzon merolae File 1 (2.14 MB) File 2 (2.14 MB) Not Available Not Available File 5 (1.43 MB) File 6 (1.43 MB)
Dictyostelium discoideum File 1 (5.43 MB) File 2 (5.42 MB) Not Available Not Available File 5 (3.74 MB) File 6 (3.73 MB)
Drosophila melanogaster File 1 (10.85 MB) File 2 (6.28 MB) Not Available Not Available File 5 (6.82 MB) File 6 (4.08 MB)
Ectocarpus siliculosus File 1 (7.09 MB) File 2 (7.09 MB) Not Available Not Available File 5 (4.69 MB) File 6 (4.69 MB)
Emiliania huxleyi File 1 (10.73 MB) File 2 (10.73 MB) Not Available Not Available File 5 (7.20 MB) File 6 (7.20 MB)
Fragilariopsis cylindrus File 1 (6.28 MB) File 2 (6.28 MB) Not Available Not Available File 5 (4.25 MB) File 6 (4.25 MB)
Galdieria sulphuraria File 1 (2.38 MB) File 2 (2.38 MB) Not Available Not Available File 5 (1.61 MB) File 6 (1.61 MB)
Helicosporidium sp. File 1 (1.40 MB) File 2 (1.40 MB) Not Available Not Available File 5 (977.77 KB) File 6 (977.77 KB)
Homo sapiens File 1 (18.43 MB) File 2 (8.36 MB) Not Available Not Available File 5 (10.13 MB) File 6 (5.51 MB)
Micromonas pusilla strain CCMP1545 File 1 (4.31 MB) File 2 (4.31 MB) Not Available Not Available File 5 (2.98 MB) File 6 (2.98 MB)
Micromonas sp RCC299 File 1 (4.04 MB) File 2 (4.04 MB) Not Available Not Available File 5 (2.76 MB) File 6 (2.76 MB)
Mus musculus File 1 (14.53 MB) File 2 (7.87 MB) Not Available Not Available File 5 (7.85 MB) File 6 (5.22 MB)
Nannochloropsis gaditana File 1 (3.81 MB) File 2 (3.67 MB) Not Available Not Available File 5 (2.55 MB) File 6 (2.45 MB)
Oryza sativa File 1 (11.93 MB) File 2 (11.93 MB) Not Available Not Available File 5 (8.00 MB) File 6 (8.00 MB)
Ostreococcus lucimarinus File 1 (2.60 MB) File 2 (2.60 MB) Not Available Not Available File 5 (1.76 MB) File 6 (1.76 MB)
Ostreococcus mediterraneus File 1 (3.09 MB) File 2 (3.09 MB) Not Available Not Available File 5 (2.09 MB) File 6 (2.09 MB)
Ostreococcus sp RCC809 File 1 (2.67 MB) File 2 (2.67 MB) Not Available Not Available File 5 (1.82 MB) File 6 (1.82 MB)
Ostreococcus tauri File 1 (2.98 MB) File 2 (2.98 MB) Not Available Not Available File 5 (2.01 MB) File 6 (2.01 MB)
Paramecium tetraurelia File 1 (14.87 MB) File 2 (14.87 MB) Not Available Not Available File 5 (10.37 MB) File 6 (10.37 MB)
Phaeodactylum tricornutum File 1 (5.10 MB) File 2 (5.10 MB) Not Available Not Available File 5 (3.42 MB) File 6 (3.42 MB)
Physcomitrella patens File 1 (9.72 MB) File 2 (9.72 MB) Not Available Not Available File 5 (6.56 MB) File 6 (6.56 MB)
Phytophtora sojae File 1 (7.73 MB) File 2 (7.73 MB) Not Available Not Available File 5 (5.12 MB) File 6 (5.12 MB)
Picochlorum sp. SENEW3 (SE3) File 1 (2.76 MB) File 2 (2.76 MB) Not Available Not Available File 5 (1.87 MB) File 6 (1.87 MB)
Picochlorum_RCC4223 File 1 (3.30 MB) File 2 (3.30 MB) Not Available Not Available File 5 (2.22 MB) File 6 (2.22 MB)
Saccharomyces cerevisiae strain S288C File 1 (2.48 MB) File 2 (2.48 MB) Not Available Not Available File 5 (1.67 MB) File 6 (1.67 MB)
Schizosaccharomyces pombe File 1 (2.04 MB) File 2 (2.04 MB) Not Available Not Available File 5 (1.38 MB) File 6 (1.38 MB)
Thalassiosira pseudonana File 1 (4.82 MB) File 2 (4.82 MB) Not Available Not Available File 5 (3.13 MB) File 6 (3.13 MB)
Volvox carteri File 1 (6.51 MB) File 2 (6.51 MB) Not Available Not Available File 5 (4.31 MB) File 6 (4.31 MB)
These files contain the information about genes that are detected as being duplicates due to a segmental duplication event or a whole genome duplication event, for all the species within this PLAZA instance.

The files contain gene-pairs (i.e. the duplicates), as well as the associated Ks value (#of synonymous substitutions per synonymous site).
SpeciesAnchorpoints
Amborella trichopoda anchorpoints_intra_species.atr.csv.gz (467.00 B)
Arabidopsis thaliana anchorpoints_intra_species.ath.csv.gz (474.00 B)
Asterochloris sp. Cgr/DA1pho v2.0 anchorpoints_intra_species.acg.csv.gz (526.00 B)
Aureococcus anophagefferens anchorpoints_intra_species.aan.csv.gz (505.00 B)
Auxenochlorella protothecoides anchorpoints_intra_species.apr.csv.gz (521.00 B)
Bathycoccus prasinos anchorpoints_intra_species.bprrcc1105.csv.gz (506.00 B)
Caenorhabditis elegans anchorpoints_intra_species.cel.csv.gz (503.00 B)
Chlamydomonas reinhardtii anchorpoints_intra_species.cre.csv.gz (528.00 B)
Chlorella sp NC64A anchorpoints_intra_species.cnc64a.csv.gz (518.00 B)
Chondrus crispus anchorpoints_intra_species.ccr.csv.gz (529.00 B)
Coccomyxa subellipsoidea C-169 anchorpoints_intra_species.cvu.csv.gz (539.00 B)
Cyanidioschyzon merolae anchorpoints_intra_species.cme.csv.gz (492.00 B)
Dictyostelium discoideum anchorpoints_intra_species.ddi.csv.gz (517.00 B)
Drosophila melanogaster anchorpoints_intra_species.drm.csv.gz (504.00 B)
Ectocarpus siliculosus anchorpoints_intra_species.esi.csv.gz (499.00 B)
Emiliania huxleyi anchorpoints_intra_species.emh.csv.gz (510.00 B)
Fragilariopsis cylindrus anchorpoints_intra_species.fcy.csv.gz (495.00 B)
Galdieria sulphuraria anchorpoints_intra_species.gsu.csv.gz (533.00 B)
Helicosporidium sp. anchorpoints_intra_species.hsp.csv.gz (528.00 B)
Homo sapiens anchorpoints_intra_species.hom.csv.gz (494.00 B)
Micromonas pusilla strain CCMP1545 anchorpoints_intra_species.mpu.csv.gz (512.00 B)
Micromonas sp RCC299 anchorpoints_intra_species.mrcc299.csv.gz (506.00 B)
Mus musculus anchorpoints_intra_species.mus.csv.gz (490.00 B)
Nannochloropsis gaditana anchorpoints_intra_species.nga.csv.gz (534.00 B)
Oryza sativa anchorpoints_intra_species.osa.csv.gz (484.00 B)
Ostreococcus lucimarinus anchorpoints_intra_species.olu.csv.gz (507.00 B)
Ostreococcus mediterraneus anchorpoints_intra_species.ome.csv.gz (495.00 B)
Ostreococcus sp RCC809 anchorpoints_intra_species.orcc809.csv.gz (510.00 B)
Ostreococcus tauri anchorpoints_intra_species.ota.csv.gz (505.00 B)
Paramecium tetraurelia anchorpoints_intra_species.pte.csv.gz (513.00 B)
Phaeodactylum tricornutum anchorpoints_intra_species.ptri.csv.gz (501.00 B)
Physcomitrella patens anchorpoints_intra_species.ppa.csv.gz (492.00 B)
Phytophtora sojae anchorpoints_intra_species.phs.csv.gz (514.00 B)
Picochlorum sp. SENEW3 (SE3) anchorpoints_intra_species.pse3.csv.gz (506.00 B)
Picochlorum_RCC4223 anchorpoints_intra_species.prcc4223.csv.gz (467.00 B)
Saccharomyces cerevisiae strain S288C anchorpoints_intra_species.sac.csv.gz (511.00 B)
Schizosaccharomyces pombe anchorpoints_intra_species.scp.csv.gz (517.00 B)
Thalassiosira pseudonana anchorpoints_intra_species.tps.csv.gz (494.00 B)
Volvox carteri anchorpoints_intra_species.vca.csv.gz (524.00 B)
These files contain the gene family information for the (coding) genes within this PLAZA instance, separated per gene family type

The following data files are available:
  • Gene family - gene mapping: mapping between the gene families and their constituent genes. Each gene can be part of only 1 gene family (per family type).
  • Gene family functional annotation: the functional annotation per gene family (GO/InterPro), which is based on enrichment analysis of the constituent genes in the family.Also included is a global score which reflects both the enrichment score and the associated p-value.See the documentation for more information.
Data TypeGene Family ClustersGene Family Enrichments
Homologous gene family genefamily_data.HOMFAM.csv.gz (3.34 MB) Not Available
Orthologous gene family genefamily_data.ORTHOFAM.csv.gz (3.69 MB) Not Available
These files contain the orthologous relationships between genes, as detected by the various methods within the Integrative Orthology approach.

For more information about the integrative orthology, see the documentation
Orthology TypeData File
Tree-based ortholog Not Available
Orthologous gene family integrative_orthology.ORTHO.csv.gz (56.57 MB)
Anchor point integrative_orthology.anchor_point.csv.gz (368.90 KB)
Best-Hits-and-Inparalogs(BHI)family integrative_orthology.BHIF.csv.gz (100.55 MB)