PlantGDB-assembled Unique Transcripts (PUT) Assembly Progress

Unless specifically requested by researchers, PlantGDB only assembles species whose mRNA sequence count is no less than 10,000. Our plan is to assemble all the major plant species from every GenBank release, providing a frequent estimation of plant gene space!

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Progress Report on Plant mRNA Clustering

Plant GenBank mRNA number PlantGDB assembly (detail) Total available Currently assembled Total # of PUTs Date Version Adiantum capillus-veneris (maidenhair fern) 10439 10365 7948 2007-02-2 157a Allium cepa (onion) 20254 20251 12990 2007-08-31 161a Amborella trichopoda 26395 26395 15772 2008-05-5 165a Antirrhinum majus (snapdragon) 25436 25070 13801 2007-01-10 157a Aquilegia formosa x Aquilegia pubescens 85040 85040 19615 2007-01-10 157a Arabidopsis thaliana (thale cress) 1601533 1338243 324630 2008-02-5 163a Arachis hypogaea 41006 40873 9236 2007-08-31 161a Aristolochia fimbriata 16451 16451 7967 2008-05-5 165a Artemisia annua 85355 85349 24963 2008-01-25 163a Avena sativa (oat) 7711 7701 5597 2007-01-11 157a Beta vulgaris (beet) 26994 25883 18009 2007-01-15 157a Brachypodium distachyon 20453 20453 9924 2007-01-15 157a Brassica napus (rape) 567970 567931 131259 2007-08-31 161a Brassica oleracea 26932 26925 12843 2008-01-30 163a Brassica oleracea var. alboglabra 30777 30767 13513 2007-06-15 159a Brassica rapa (field mustard) 183275 181102 43468 2008-01-31 163a Bruguiera gymnorhiza (burma mangrove) 20466 20388 12423 2007-06-15 159a Capsicum annuum (chilli pepper) 31974 31499 15278 2007-01-16 157a Carthamus tinctorius 41018 41016 22428 2007-06-15 159a Catharanthus roseus 20481 20460 9675 2008-05-5 165a Cenchrus ciliaris 21750 21737 12364 2008-05-5 165a Centaurea maculosa 44886 44620 28506 2007-09-2 161a Centaurea solstitialis 40407 40407 26288 2007-06-15 159a Ceratopteris richardii 5179 5178 4234 2007-01-16 157a Chlamydomonas reinhardtii 202702 202676 50380 2008-01-30 163a Cichorium endivia 30171 30171 21603 2007-06-15 159a Cichorium intybus 41782 41777 25368 2007-06-16 159a Citrus clementina 63042 61393 37350 2007-01-16 157a Citrus sinensis (sweet orange) 94891 94271 27239 2007-01-16 157a Coffea arabica (arabica coffee) 1448 1211 1093 2007-01-11 157a Coffea canephora (robusta coffee) 55788 55749 20168 2007-01-16 157a Cryptomeria japonica 19652 19651 10147 2007-09-2 161a Cucumis melo subsp. melo 22683 22683 13692 2008-01-25 163a Cucumis sativus 6732 5615 3954 2007-01-16 157a Curcuma longa 12593 12593 6627 2007-01-16 157a Cyamopsis tetragonoloba 16482 16481 7618 2007-01-16 157a Cycas rumphii 21997 21757 10901 2008-01-25 163a Elaeis guineensis 17112 17084 11420 2008-01-25 163a Eragrostis curvula 12295 12295 10948 2008-05-5 165a Eucalyptus globulus 10032 10032 5885 2008-01-25 163a Eucalyptus gunnii 19853 19819 8171 2008-05-6 165a Euphorbia esula (leafy spurge) 47587 47583 27994 2007-01-16 157a Festuca arundinacea (tall fescue) 44409 44406 21517 2007-01-16 157a Fragaria vesca 42749 42748 11527 2008-01-30 163a Gerbera hybrid cv. 'Terra Regina' 17015 15864 9018 2007-01-16 157a Ginkgo biloba 19632 19288 8819 2008-01-25 163a Glycine max (soybean) 395967 393338 105862 2007-09-4 161a Glycine soja (wild soybean) 18528 18523 11332 2007-01-17 157a Gnetum gnemon 10751 10430 6193 2008-01-25 163a Gossypium arboreum (tree cotton) 39274 39261 24597 2007-01-23 157a Gossypium hirsutum (upland cotton) 266596 266579 98420 2008-05-8 165a Gossypium raimondii 63583 63583 27355 2007-01-23 157a Helianthus annuus (common sunflower) 94456 94331 40695 2007-01-23 157a Helianthus argophyllus 35720 34655 20511 2007-01-24 157a Helianthus ciliaris 21590 21590 16353 2007-06-15 159a Helianthus exilis 33961 32827 21776 2007-01-24 157a Helianthus paradoxus 30517 30517 20645 2007-06-15 159a Helianthus petiolaris 27484 27484 14885 2007-01-24 157a Helianthus tuberosus 40394 40394 25708 2007-06-15 159a Hevea brasiliensis 11198 11023 3849 2007-01-24 157a Hordeum vulgare (barley) 509369 467490 123674 2007-09-3 161a Humulus lupulus 13434 13426 4824 2008-01-25 163a Ipomoea batatas 19698 18262 8808 2007-01-24 157a Ipomoea nil (Japanese morning glory) 62417 62369 22946 2007-01-24 157a Juglans hindsii x Juglans regia 12794 12794 7753 2007-06-15 159a Lactuca perennis 29125 29125 12747 2007-01-24 157a Lactuca saligna 30696 30696 12186 2007-01-24 157a Lactuca sativa (garden lettuce) 80898 80870 29977 2007-01-24 157a Lactuca serriola 55490 55490 22957 2007-01-24 157a Lactuca virosa 30068 30068 12839 2007-01-24 157a Leymus cinereus x Leymus triticoides 28786 28786 13567 2008-01-25 163a Limnanthes alba 15332 15332 4359 2008-05-6 165a Liriodendron tulipifera 24142 24142 14232 2008-05-6 165a Lotus japonicus 158231 150838 43596 2007-01-24 157a Malus x domestica (apple) 256085 255368 71246 2007-01-24 157a Manihot esculenta (cassava) 76649 76649 30401 2008-05-7 165a Marchantia polymorpha (liverwort) 33755 33717 10959 2007-01-24 157a Medicago sativa (alfalfa) 11522 11401 6104 2008-01-30 163a Medicago truncatula (barrel medic) 250460 237689 57231 2007-09-2 161a Mesembryanthemum crystallinum (common iceplant) 27563 27553 11317 2007-01-24 157a Mesostigma viride 16024 15940 7371 2007-01-25 157a Mimulus guttatus (spotted monkey flower) 14593 14504 8708 2007-01-25 157a Musa acuminata 5642 419 347 2007-01-25 157a Nicotiana benthamiana 42838 41676 18037 2007-09-2 161a Nicotiana langsdorffii x Nicotiana sanderae 12522 12499 6791 2007-01-25 157a Nicotiana sylvestris 8677 8654 7612 2008-03-27 163a Nicotiana tabacum (common tobacco) 161559 158620 89461 2008-01-30 163a Nuphar advena 20596 20596 13789 2008-05-8 165a Ocimum basilicum 23284 23253 8926 2007-01-25 157a Oryza sativa (rice) 62339 62328 44644 2008-03-13 163a Oryza sativa Indica Group 185334 185287 85006 2008-03-7 163a Oryza sativa Japonica Group 1024442 1015010 146642 2008-03-12 163a Ostreococcus lucimarinus CCE9901 17592 17592 13940 2007-08-31 161a Panicum virgatum (switchgrass) 73575 73575 29653 2008-05-6 165a Persea americana 16603 16603 10928 2008-05-6 165a Petunia x hybrida 14321 14284 9884 2007-06-14 159a Phaseolus angustissimus 10272 10272 3499 2008-05-6 165a Phaseolus coccineus 20134 20094 8419 2007-01-26 157a Phaseolus vulgaris (kidney bean) 77094 77093 21361 2008-05-6 165a Physcomitrella patens 326474 326320 51665 2008-01-31 163a Picea abies 10412 10393 5184 2007-06-15 159a Picea engelmannii x Picea glauca 28182 28179 13880 2007-01-26 157a Picea glauca (white spruce) 272548 272548 53255 2008-01-31 163a Picea sitchensis (Sitka spruce) 164341 164338 29178 2008-05-8 165a Pinus pinaster (cluster pine) 27372 27294 12901 2007-01-26 157a Pinus taeda (loblolly pine) 328769 329584 72829 2007-01-26 157a Poncirus trifoliata 29732 28963 11204 2008-01-25 163a Populus deltoides 14679 14663 8186 2008-01-25 163a Populus euphratica 13930 13925 9117 2008-01-25 163a Populus nigra (black poplar) 51400 51399 32718 2008-01-27 163a Populus tremula (European aspen) 37321 37319 19633 2008-01-31 163a Populus tremula x Populus alba 27098 22666 13517 2008-01-31 163a Populus tremula x Populus tremuloides 76282 76267 35128 2007-01-27 157a Populus tremuloides (quaking aspen) 12906 12865 5730 2007-01-27 157a Populus trichocarpa (western balsam poplar) 94227 90079 29682 2007-01-27 157a Populus trichocarpa x Populus deltoides 55867 55223 23686 2007-01-27 157a Populus trichocarpa x Populus nigra 20130 20130 9740 2007-01-27 157a Populus x canadensis (Canadian poplar) 10200 10194 4940 2007-01-27 157a Prunus armeniaca (apricot) 15199 15190 5637 2007-01-27 157a Prunus persica (peach) 71357 71094 25904 2007-01-27 157a Pseudotsuga menziesii var. menziesii 14354 14353 9857 2007-09-3 161a Raphanus raphanistrum subsp. landra 41935 41931 11855 2008-05-7 165a Raphanus raphanistrum subsp. maritimus 40660 40649 11967 2008-05-7 165a Raphanus raphanistrum subsp. raphanistrum 81530 81505 23058 2008-05-7 165a Raphanus sativus 83125 83101 22587 2008-05-7 165a Raphanus sativus var. oleiformis 40329 40320 12782 2008-05-7 165a Ricinus communis 57801 57774 12382 2008-01-31 163a Saccharum officinarum (sugarcane) 246649 246581 131381 2007-01-27 157a Salvia miltiorrhiza (Chinese salvia) 10323 10306 5624 2007-01-28 157a Saruma henryi 10280 10277 6754 2007-01-28 157a Secale cereale (rye) 9374 9264 5977 2007-01-28 157a Selaginella moellendorffii 93828 93828 20542 2008-05-5 165a Solanum chacoense 7811 7805 7110 2008-03-17 163a Solanum habrochaites 8027 8027 4024 2008-03-17 163a Solanum lycopersicum 263634 262718 48945 2007-09-3 161a Solanum pennellii 8357 8357 3718 2008-03-17 163a Solanum tuberosum (potato) 232455 228381 70344 2007-01-28 157a Sorghum bicolor (sorghum) 209931 204306 44954 2007-01-28 157a Sorghum propinquum 20882 20882 9061 2007-01-28 157a Tamarix hispida 17403 17401 8616 2007-01-28 157a Taraxacum officinale 41459 41458 18333 2007-01-28 157a Theobroma cacao 6831 6525 3667 2007-01-28 157a Trifolium pratense 38280 38277 12746 2007-01-28 157a Triphysaria pusilla 59549 59549 25947 2007-11-12 162b Triphysaria versicolor 49014 49014 15255 2007-11-12 162b Triticum aestivum (bread wheat) 1053297 1052845 301765 2008-04-15 163b Triticum monococcum (one-grained wheat) 11253 11231 6987 2007-01-28 157a Triticum turgidum subsp. durum 17457 17378 7615 2008-05-6 165a Vigna unguiculata 48397 48395 17977 2008-05-6 165a Vitis shuttleworthii (calloose grape) 10704 10704 5905 2007-01-28 157a Vitis vinifera (wine grape) 353668 317107 47846 2007-01-28 157a Volvox carteri f. nagariensis 132096 132096 20687 2008-05-6 165a Welwitschia mirabilis 10137 10134 6606 2007-01-29 157a Zamia vazquezii 11495 11495 7657 2008-05-6 165a Zea mays 1479503 1191526 322003 2008-03-20 163a Zingiber officinale 38161 38103 16495 2007-01-29 157a Zinnia elegans 18076 18069 16341 2007-01-29 157a