Plant Ontology Release #19 December 2012
Plant Ontology Database
Release 19
Ontology updates
Number of terms:
Total terms (not including obsoletes) 1509 Total children terms in Plant Anatomical Entity (not including obsoletes) 1221 Total children terms in Plant Structure Development Stage (not including obsoletes) 286 Associations / Annotations
Number of associations/annotations:
Total number of associations 2258615 Number of associations NEW 82703 Total number of unique objects (genes, germplasms, QTLs) 142344 Number of unique objects NEW 31384
Number of associations by source database:
Database Associations Total# TAIR Arabidopsis (mouse-ear cress) 532476 NASC Arabidopsis (mouse-ear cress) 1897 Gramene Oryza sativa (rice) 29871 Gramene Physcomitrella 20 MaizeGDB Zea mays (maize) 1495156 Jaiswal Lab Fragaria vesca (strawberry) 9561 Cosmoss Physcomitrella 81875 AgBase Gossypium hirsutum (upland cotton) 262 MGCSC 5070 POC Vitis (grape) 3397 POC Oryza sativa (rice - japonica subgroup) 73951 POC Picea (spruce) 3 SGN (individual species listed below) 20016 -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) 18950 -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 24548 TAIR (Arabidopsis) 224 TAIR (Arabidopsis) miRNA 41 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 1428 POC miRNA 128 POC mRNA 29735 Total number of associations by evidence code:
Evidence Code Associations Total# IC 18101 IDA 20611 IEA 1 IEP 2172624 IGI 1 IMP 42230 ISS 21 NAS 30 TAS 5358 Total number of object types by evidence code:
Object Type Evidence Code Object Type Total# protein IDA 17456 protein IEP 512886 protein IMP 6 protein NAS 29 protein TAS 96 IDA 9 IEP 2105 miRNA IDA 22 miRNA IEP 497 RNA IEP 41 gene_product IEP 1 gene_product NAS 1 snoRNA IEP 1 germplasm IDA 3045 germplasm IMP 18393 gene IC 571 gene IDA 79 gene IEA 1 gene IEP 3911 gene IGI 1 gene IMP 7387 gene ISS 21 gene TAS 5262 QTL IC 17530 QTL IMP 6304 mRNA IEP 165021 gene_model IEP 1487963 stock IMP 5070