Plant Ontology Release #20 August 2013
Plant Ontology Database
Release 20
Ontology updates
Number of terms:
Total terms (not including obsoletes) 1554 Total children terms in Plant Anatomical Entity (not including obsoletes) 1263 Total children terms in Plant Structure Development Stage (not including obsoletes) 289 Associations / Annotations
Number of associations/annotations:
Total number of associations 2254233 Number of associations NEW N/A Total number of unique objects (genes, germplasms, QTLs) 142581 Number of unique objects NEW 237
Number of associations by source database:
Database Associations Total# TAIR Arabidopsis (mouse-ear cress) 532679 NASC Arabidopsis (mouse-ear cress) 1897 Gramene Oryza sativa (rice) 29867 Gramene Physcomitrella 10 MaizeGDB Zea mays (maize) 1495156 Jaiswal Lab Fragaria vesca (strawberry) 9561 Cosmoss Physcomitrella 81875 AgBase Gossypium hirsutum (upland cotton) 472 MGCSC 5070 POC Vitis (grape) 3675 POC Oryza sativa (rice - japonica subgroup) 73952 POC Picea (spruce) 3 SGN (individual species listed below) 20015 -Anisodus acutangulus 2 -Atropa baetica 4 -Capsicum annuum (pepper) 54 -Coffea arabica (coffee) 8 -Datura strumonium (jimson weed) 3 -Hyoscyamus niger (black henbane) 2 -Lycopersicon esculentum (tomato) 18949 -Nicotiana tabacum (tobacco) 41 -Petunia hybrida (hybrid petunia) 55 -Physalis spp 4 -Solanum chmielewskii 3 -Solanum insanum/Solanum melongena (eggplant) 873 -Solanum pennellii 3 -Solanum tuberosum (potato) 14 Total number of individual object types by source database:
Database Object Type Object Types Total# TAIR (Arabidopsis) protein 24568 TAIR (Arabidopsis) 224 TAIR (Arabidopsis) miRNA 42 TAIR (Arabidopsis) RNA 2 TAIR (Arabidopsis) gene_product 2 TAIR (Arabidopsis) snoRNA 1 NASC (Arabidopsis) germplasm 1897 Jaiswal Lab (Fragaria) mRNA 3904 Gramene (rice) gene 1715 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 MGCSC stock 3609 POC gene 1508 POC miRNA 129 POC mRNA 29735 Total number of associations by evidence code:
Evidence Code Associations Total# IC 18101 IDA 20694 IEA 1 IEP 2172755 IGI 1 IMP 37438 ISS 21 NAS 30 TAS 5357 Total number of object types by evidence code:
Object Type Evidence Code Object Type Total# protein IDA 17539 protein IEP 513004 protein IMP 6 protein NAS 29 protein TAS 96 IDA 9 IEP 2105 miRNA IDA 22 miRNA IEP 501 RNA IEP 41 gene_product IEP 1 gene_product NAS 1 snoRNA IEP 1 germplasm IDA 3045 germplasm IMP 18385 gene IC 571 gene IDA 79 gene IEA 1 gene IEP 3908 gene IGI 1 gene IMP 7665 gene ISS 21 gene TAS 5261 QTL IC 17530 QTL IMP 6304 mRNA IEP 165021 gene_model IEP 1487963 stock IMP 5070 transcript IEP 210