Ontology Updates
Details of the Plant Ontology Release #21- Wiki page
Number of Terms (not including obsoletes):
Total terms 1592 Total terms in Plant Anatomical Entity 1296 Total terms in Plant Structure Development Stage 296
Plant Ontology Database
Number of annotations:
Total number of annotations 2291235 Number of annotations NEW 37002 Total number of unique objects (genes, germplasms, QTLs) 150687 Number of unique objects NEW 8106
Total number of annotations by species:
Species Common name Annotations Total# Arabidopsis thaliana thale cress 557020 Oryza sativa rice 104098 Physcomitrella patens moss 81885 Anisodus spp wild relative of tomato 2 Atropa spp nightshade 4 Capsicum spp peppers 54 Coffea spp coffee 8 Datura spp angel's trumpets, moonflowers 3 Hycoscyamus spp henbane 2 Nicotiana spp tobacco 41 Petunia spp petunia 55 Physalis spp groundcherry 4 Solanum lycopersicum tomato 19096 Solanum tuberosum potato 14 Solanum melongena eggplant 873 Solanum chmielewskii wild tomato 3 Solanum pennellii wild tomato 3 Fragaria vesca wild strawberry 9561 Picea abies Norway spruce 1 Picea glauca White spruce 2 Zea mays maize, corn 1512159 Gossypium hirsutum upland cotton 472 Vitis vinifera grape 3397 Glycine max soybean 2397 Medicago truncatula barrel medic 81
Number of annotations by source database:
Database Annotations Total# TAIR Arabidopsis (thale cress) 551789 NASC Arabidopsis (thale cress) 1897 Gramene Oryza sativa (rice) 29868 Gramene Physcomitrella (moss) 10 MaizeGDB Zea mays (maize) 1494915 Jaiswal Lab Fragaria vesca (strawberry) 9561 Cosmoss Physcomitrella (moss) 81875 AgBase Gossypium hirsutum (upland cotton) 472 LIS Medicago trunculata (barrel medic) 81 MGCSC Zea mays (maize) 4932 POC Vitis (grape) 3675 POC Oryza sativa (rice - japonica subgroup) 89859 POC Picea (spruce) 3 Soybase Glycine max (soybean) 2364 SGN (individual species listed below) 20015 -Anisodus spp (wild relative of tomato) 2 -Atropa spp (nightshade) 4 -Capsicum spp (pepper) 54 -Coffea spp (coffee) 8 -Datura spp (angel's trumpets, moonflowers) 3 -Hyoscyamus spp (henbane) 2 -Nicotiana spp (tobacco) 41 -Petunia spp (petunia) 55 -Physalis spp (groundcherry) 4 -Solanum chmielewskii (wild tomato) 3 -Solanum insanum/Solanum melongena (eggplant) 873 -Solanum lycopersicum (tomato) 18949 -Solanum pennellii (wild tomato) 3 -Solanum tuberosum (potato) 14
Total number of individual object types by source database:
Database Object Type Object Types Total# TAIR (Arabidopsis) protein 27336 TAIR (Arabidopsis) unknown 446 TAIR (Arabidopsis) miRNA 53 TAIR (Arabidopsis) RNA 280 TAIR (Arabidopsis) snRNA 8 TAIR (Arabidopsis) rRNA 4 TAIR (Arabidopsis) snoRNA 10 NASC (Arabidopsis) germplasm 1897 Jaiswal Lab (Fragaria) mRNA 3904 Gramene (rice) gene 1716 Gramene (rice) QTL 8558 Gramene (Physcomitrella Patens) gene 5 Cosmoss (Physcomitrella Patens) mRNA 25593 MaizeGDB (maize) gene 780 MaizeGDB (maize) gene_model 35323 SGN gene 216 SGN germplasm 4503 AgBase protein 132 AgBase transcript 210 MGCSC stock 3609 LIS gene 32 POC gene 3732 POC gene_model 3457 POC miRNA 129 POC mRNA 29735 SoyBase QTL 2249
Total number of annotations by evidence code:
Evidence Code Annotations Total# IC 20497 IDA 20770 IEA 1 IEP 2203797 IGI 1 IMP 40958 ISS 21 NAS 30 TAS 5357
Total number of object types by evidence code:
Object Type Evidence Code Object Type Total# protein IDA 17613 protein IEP 531443 protein IMP 6 protein NAS 29 protein TAS 96 unknown IDA 9 unknown IEP 2381 miRNA IDA 24 miRNA IEP 520 RNA IEP 320 snRNA IEP 8 snoRNA IEP 10 rRNA IEP 4 germplasm IDA 3045 germplasm IMP 18393 gene IC 571 gene IDA 79 gene IEA 1 gene IEP 3908 gene IGI 1 gene IMP 11323 gene ISS 21 gene TAS 5261 QTL IC 19926 QTL IMP 6304 mRNA IEP 165021 gene_model IEP 1499971 stock IMP 4932 transcript IEP 210 gene product IEP 1 gene product NAS 1