Plants Genomes assembly hubs

Assemblies from NCBI/Genbank/Refseq sources, subset of plants only.

How to view the hub

Options:

  1. The links to the genome browser in the table below will attach that one specific assembly to the genome browser. This is most likely what you want. Alternatively, the entire set of assemblies can be attached as one group to the genome browser with the following links depending upon which of our mirror site browsers you prefer to use:
    attach all assemblies to selected site:   genome.ucsc.edu   genome-euro.ucsc.edu   genome-asia.ucsc.edu
  2. To manually attach all the assemblies in this hub to genome browsers that are not one of the three UCSC mirror sites:
    1. From the blue navigation bar, go to My Data -> Track Hubs
    2. Then select the My Hubs tab and enter this URL into the textbox:
      https://hgdownload.soe.ucsc.edu/hubs/plants/hub.txt
    3. Once you have added the URL to the entry form, press the Add Hub button to add the hub.

After adding the hub, you will be redirected to the gateway page. The genome assemblies can be selected from the Plants Hub Assembly dropdown menu. Instead of adding all the assemblies in one collected group, use the individual view in browser in the table below.

See also: assembly statistics, track statistics <== additional information for these assemblies.


Data resource links

NOTE: Click on the column headers to sort the table by that column

The common name and view in browser will attach only that single assembly to the genome browser.
The scientific name and data download link provides access to the files for that one assembly hub.
The class VGP link provides access to the VGP GenomeArk page for that genome.
The other links provide access to NCBI resources for these assemblies.
count common name and
view in browser		 scientific name
and data download		 NCBI assembly BioSampleBioProject assembly date,
source link
1 adzuki bean Vigna angularis GCF_001190045.1_Vigan1.1 SAMN03074979 PRJNA261643 2015-07-31
2 almond Prunus dulcis GCF_902201215.1_ALMONDv2 SAMEA5704668 PRJEB32994 2019-10-10
3 African oil palm Elaeis guineensis GCF_000442705.1_EG5 SAMN02981535 PRJNA192219 2013-08-13
4 algarrobo blanco Prosopis alba GCF_004799145.1_ASM479914v1 SAMN10988825 PRJNA514254 2019-04-17
5 apple Malus domestica GCF_002114115.1_ASM211411v1 SAMN05603590 PRJNA339703 2017-05-03
6 Barbados nut Jatropha curcas GCF_014843425.1_RJC1_Hi-C SAMN15963826 PRJNA601606 2020-10-05
7 barrel medic (2014) Medicago truncatula GCF_000219495.3_MedtrA17_4.0 SAMN02299339 PRJNA10791 2014-06-18
8 barrel medic (2018) Medicago truncatula GCF_003473485.1_MtrunA17r5.0-ANR SAMN08400029 PRJNA431767 2018-09-12
9 beet Beta vulgaris subsp. vulgaris GCF_000511025.2_RefBeet-1.2.2 SAMN02182557 PRJNA41497 2015-07-07
10 bitter melon Momordica charantia GCF_001995035.1_ASM199503v1 SAMD00048603 PRJDB4642 2016-12-26
11 black cottonwood Populus trichocarpa GCF_000002775.4_Pop_tri_v3 SAMN02953657 PRJNA10772 2018-01-24
12 black tea Camellia sinensis GCF_004153795.1_AHAU_CSS_1 SAMN06329939 PRJNA510226 2019-02-11
13 cacao Theobroma cacao GCF_000208745.1_Criollo_cocoa_genome_V2 SAMEA4028428 PRJEB14326 2016-07-09
14 cannabis Cannabis sativa GCF_900626175.2_cs10 SAMEA5040675 PRJEB29284 2019-02-14
15 capsicum Capsicum annuum GCF_000710875.1_Pepper_Zunla_1_Ref_v1.0 SAMN01906946 PRJNA186921 2015-03-11
16 carrot Daucus carota subsp. sativus GCF_001625215.1_ASM162521v1 SAMN03216637 PRJNA268187 2016-05-06
17 cassava Manihot esculenta GCF_001659605.1_Manihot_esculenta_v6 SAMN04116956 PRJNA234389 2016-06-10
18 castor bean Ricinus communis GCF_000151685.1_JCVI_RCG_1.1 SAMN02953659 PRJNA16585 2011-07-07
19 chickpea Cicer arietinum GCF_000331145.1_ASM33114v1 SAMN02981489 PRJNA175619 2013-01-16
20 China rose Rosa chinensis GCF_002994745.1_RchiOBHm-V2 SAMN07737764 PRJNA413292 2018-03-13
21 Chinese white pear Pyrus x bretschneideri GCF_000315295.1_Pbr_v1.0 SAMN01797448 PRJNA157875 2012-12-03
22 clementine Citrus clementina GCF_000493195.1_Citrus_clementina_v1.0 SAMN02389527 PRJNA223006 2013-11-08
23 club-mosses Selaginella moellendorffii GCF_000143415.4_v1.0 SAMN02981255 PRJNA13078 2010-07-06
24 coffee C.arabica Coffea arabica GCF_003713225.1_Cara_1.0 SAMN10272287 PRJNA497895 2018-11-08
25 coffee C.eugenioides Coffea eugenioides GCF_003713205.1_Ceug_1.0 SAMN10269643 PRJNA497891 2018-11-08
26 common bean Phaseolus vulgaris GCF_000499845.1_PhaVulg1_0 SAMN02981484 PRJNA41439 2013-11-29
27 common jujube Ziziphus jujuba GCF_000826755.1_ZizJuj_1.1 SAMN02918186 PRJNA251714 2015-02-06
28 common sunflower Helianthus annuus GCF_002127325.2_HanXRQr2.0-SUNRISE SAMN05868438 PRJNA345532 2020-07-15
29 common tobacco Nicotiana tabacum GCF_000715135.1_Ntab-TN90 SAMN02316627 PRJNA208209 2014-05-29
30 cork oak Quercus suber GCF_002906115.1_CorkOak1.0 SAMN07312269 PRJNA392919 2018-01-29
31 cotton G.hirsutum Gossypium hirsutum GCF_000987745.1_ASM98774v1 SAMN03342414 PRJNA259930 2015-05-05
32 cotton G.raimondii Gossypium raimondii GCF_000327365.1_Graimondii2_0 SAMN02743920 PRJNA171262 2012-12-20
33 cowpea Vigna unguiculata GCF_004118075.1_ASM411807v1 SAMN06674009 PRJNA381312 2019-01-30
34 crookneck pumpkin Cucurbita moschata GCF_002738365.1_Cmos_1.0 SAMN06886672 PRJNA385310 2017-10-31
35 date palm (Khalas 2013) Phoenix dactylifera GCF_000413155.1_DPV01 SAMN02981540 PRJNA83433 2013-06-24
36 date palm (Barhee BC4 2019) Phoenix dactylifera GCF_009389715.1_palm_55x_up_171113_PBpolish2nd_filt_p SAMN05011615 PRJNA322046 2019-11-04
37 durian Durio zibethinus GCF_002303985.1_Duzib1.0 SAMN07563003 PRJNA400310 2017-09-15
38 East African water lily Nymphaea colorata GCF_008831285.1_ASM883128v1 SAMN12766378 PRJNA565347 2019-10-07
39 English walnut Juglans regia GCF_001411555.2_Walnut_2.0 SAMN03704235 PRJNA291087 2020-07-08
40 pink shepherd's-purse Capsella rubella GCF_000375325.1_Caprub1_0 SAMN02981483 PRJNA13878 2013-04-23
41 mulberry M.notabilis Morus notabilis GCF_000414095.1_ASM41409v2 SAMN02141246 PRJNA202089 2013-08-07
42 Euphrates poplar Populus euphratica GCF_000495115.1_PopEup_1.0 SAMN02981499 PRJNA178692 2014-08-12
43 false flax Camelina sativa GCF_000633955.1_Cs SAMN02644653 PRJNA231618 2014-04-24
44 field mustard Brassica rapa GCF_000309985.2_CAAS_Brap_v3.01 SAMN02981293 PRJNA59981 2020-01-23
45 flowering plants Amborella trichopoda GCF_000471905.2_AMTR1.0 SAMN02313977 PRJNA212863 2013-09-30
46 foxtail millet Setaria italica GCF_000263155.2_Setaria_italica_v2.0 SAMN02981383 PRJNA32913 2015-10-30
47 garden asparagus Asparagus officinalis GCF_001876935.1_Aspof.V1 SAMN04606231 PRJNA317340 2017-02-06
48 globe artichoke Cynara cardunculus var. scolymus GCF_001531365.1_CcrdV1 SAMN03402638 PRJNA238069 2018-04-17
49 goatgrass A.strangulata Aegilops tauschii subsp. strangulata GCF_002575655.1_Aet_v4.0 SAMN05426520 PRJNA341983 2017-10-18
50 goatgrass A.tauschii Aegilops tauschii subsp. tauschii GCF_001957025.1_Aet_MR_1.0 SAMN05426520 PRJNA329335 2017-01-19
51 green algae C.reinhardtii Chlamydomonas reinhardtii GCF_000002595.1_v3.0 SAMN02953692 PRJNA12260 2007-10-15
52 green algae O.lucimarinus Ostreococcus lucimarinus CCE9901 GCF_000092065.1_ASM9206v1 SAMN03081420 PRJNA13044 2007-04-10
53 green algae C.variabilis Chlorella variabilis GCF_000147415.1_v_1.0 SAMN02744065 PRJNA45853 2010-09-16
54 green algae V.carteri Volvox carteri f. nagariensis GCF_000143455.1_v1.0 SAMN02953753 PRJNA13109 2010-07-08
55 green algae O.tauri Ostreococcus tauri GCF_000214015.3_version_140606 SAMEA3138397 PRJNA12912 2014-10-02
56 green algae M.pusilla Micromonas pusilla CCMP1545 GCF_000151265.2_Micromonas_pusilla_CCMP1545_v2.0 SAMN02953743 PRJNA15678 2009-04-09
57 green algae C.subellipsoidea Coccomyxa subellipsoidea C-169 GCF_000258705.1_Coccomyxa_subellipsoidae_v2.0 SAMN02744078 PRJNA32657 2012-04-13
58 green algae M.neglectum Monoraphidium neglectum GCF_000611645.1_mono_v1 SAMN02981574 PRJNA221625 2015-02-26
59 green algae A.protothecoides Auxenochlorella protothecoides GCF_000733215.1_ASM73321v1 SAMN02433493 PRJNA182710 2014-08-01
60 green algae B.prasinos Bathycoccus prasinos GCF_002220235.1_ASM222023v1 n/a PRJEA71363 2012-11-22
61 green foxtail Setaria viridis GCF_005286985.1_Setaria_viridis_v2.0 SAMN05660902 PRJNA265547 2019-05-14
62 Hall's panicgrass Panicum hallii GCF_002211085.1_PHallii_v3.1 SAMN03003198 PRJNA250527 2018-05-01
63 Indian licorice Abrus precatorius GCF_003935025.1_Abrus_2018 SAMN10039699 PRJNA482671 2018-12-11
64 Japanese apricot Prunus mume GCF_000346735.1_P.mume_V1.0 SAMN02981503 PRJNA171605 2014-02-28
65 Japanese morning glory Ipomoea nil GCF_001879475.1_Asagao_1.1 SAMD00022859 PRJDB4356 2016-09-01
66 Japanese rice Oryza sativa Japonica Group GCF_001433935.1_IRGSP-1.0 SAMD00000397 PRJDB1747 2015-10-10
67 lettuce Lactuca sativa GCF_002870075.1_Lsat_Salinas_v7 SAMN01730979 PRJNA173551 2018-01-09
68 lyrate rockcress Arabidopsis lyrata subsp. lyrata GCF_000004255.2_v.1.0 SAMN02981250 PRJNA41137 2016-11-26
69 malo sina Oryza brachyantha GCF_000231095.1_Oryza_brachyantha.v1.4b SAMN02981362 PRJNA70533 2012-01-19
70 maize Zea mays GCF_902167145.1_Zm-B73-REFERENCE-NAM-5.0 SAMEA5569141 PRJEB32225 2020-03-21
71 mosses Physcomitrella patens GCF_000002425.4_Phypa_V3 SAMN00120126 PRJNA13064 2018-01-24
72 mung bean Vigna radiata var. radiata GCF_000741045.1_Vradiata_ver6 SAMN02720863 PRJNA243847 2015-10-28
73 muskmelon Cucumis melo GCF_000313045.1_ASM31304v1 SAMEA2272451 PRJEB68 2012-10-05
74 narrow-leaved blue lupine Lupinus angustifolius GCF_001865875.1_LupAngTanjil_v1.0 SAMN04215042 PRJNA299755 2016-11-16
75 opium poppy Papaver somniferum GCF_003573695.1_ASM357369v1 SAMN08604995 PRJNA435796 2018-09-18
76 orchid D.catenatum Dendrobium catenatum GCF_001605985.2_ASM160598v2 SAMN03083363 PRJNA262478 2017-12-12
77 orchid P.equestris Phalaenopsis equestris GCF_001263595.1_ASM126359v1 SAMN02046388 PRJNA192198 2015-08-07
78 papaya Carica papaya GCF_000150535.2_Papaya1.0 SAMN02953710 PRJNA20267 2008-05-06
79 peach Prunus persica GCF_000346465.2_Prunus_persica_NCBIv2 SAMN02981429 PRJNA31227 2017-02-02
80 peanut Arachis hypogaea GCF_003086295.2_arahy.Tifrunner.gnm1.KYV3 SAMN08051159 PRJNA419393 2018-05-30
81 pigeon pea Cajanus cajan GCF_000340665.1_C.cajan_V1.0 SAMN02981370 PRJNA72815 2016-09-29
82 pineapple Ananas comosus GCF_001540865.1_ASM154086v1 SAMN04316497 PRJNA305080 2016-03-14
83 pistachio Pistacia vera GCF_008641045.1_PisVer_v2 SAMN11269074 PRJNA526975 2019-09-23
84 pomegranate Punica granatum GCF_007655135.1_ASM765513v2 SAMN05193489 PRJNA324150 2019-10-22
85 potato Solanum tuberosum GCF_000226075.1_SolTub_3.0 SAMN02981305 PRJNA63145 2011-09-19
86 quinoa Chenopodium quinoa GCF_001683475.1_ASM168347v1 SAMN04338310 PRJNA306026 2017-05-19
87 radish Raphanus sativus GCF_000801105.1_Rs1.0 SAMN03084390 PRJNA239785 2015-09-29
88 rape Brassica napus GCF_000686985.2_Bra_napus_v2.0 SAMN02742820 PRJNA237736 2017-09-15
89 riverbank grape Vitis riparia GCF_004353265.1_EGFV_Vit.rip_1.0 SAMN10662253 PRJNA512170 2019-04-16
90 rose gum (BRASUZ1 2014) Eucalyptus grandis GCF_000612305.1_Egrandis1_0 SAMN02230419 PRJNA49047 2014-05-02
91 rose gum (2021) Eucalyptus grandis GCF_016545825.1_ASM1654582v1 SAMN13016251 PRJNA509734 2021-01-06
92 rose of Sharon Hibiscus syriacus GCF_006381635.1_ASM638163v2 SAMN11494363 PRJNA535386 2019-11-18
93 rubber tree Hevea brasiliensis GCF_001654055.1_ASM165405v1 SAMN04451765 PRJNA310386 2016-06-01
94 sacred lotus Nelumbo nucifera GCF_000365185.1_Chinese_Lotus_1.1 SAMN02054413 PRJNA168000 2013-08-08
95 saltwater cress Eutrema salsugineum GCF_000478725.1_Eutsalg1_0 SAMN02981485 PRJNA73205 2013-11-05
96 scented satinash Syzygium oleosum GCF_900635055.1_Sole10x-PRISCAF SAMEA5186524 PRJEB30445 2019-02-07
97 sesame Sesamum indicum GCF_000512975.1_S_indicum_v1.0 SAMN02981519 PRJNA186669 2014-01-06
98 silver malletwood Rhodamnia argentea GCF_900635035.1_Rarg10x-PRISCAF SAMEA5186523 PRJEB30444 2019-02-07
99 silver poplar Populus alba GCF_005239225.1_ASM523922v1 SAMN10068022 PRJNA491245 2019-05-08
100 sorghum Sorghum bicolor GCF_000003195.3_Sorghum_bicolor_NCBIv3 SAMN02953738 PRJNA13876 2017-04-07
101 soybean Glycine max GCF_000004515.5_Glycine_max_v2.1 SAMN00002965 PRJNA19861 2018-07-24
102 spider flower Tarenaya hassleriana GCF_000463585.1_ASM46358v1 SAMN02981509 PRJNA175230 2013-09-05
103 spinach Spinacia oleracea GCF_002007265.1_ASM200726v1 SAMN05242642 PRJNA325593 2017-02-27
104 spotted monkey flower Erythranthe guttata GCF_000504015.1_Mimgu1_0 SAMN02742818 PRJNA13880 2014-04-02
105 stiff brome Brachypodium distachyon GCF_000005505.3_Brachypodium_distachyon_v3.0 SAMN02981254 PRJNA32607 2018-01-24
106 sweet orange Citrus sinensis GCF_000317415.1_Csi_valencia_1.0 SAMN02981414 PRJNA86123 2012-12-12
107 sweet cherry Prunus avium GCF_002207925.1_PAV_r1.0 SAMD00052827 PRJDB4877 2017-06-12
108 switchgrass Panicum virgatum GCF_016808335.1_P.virgatum_v5 SAMN00760928 PRJNA40657 2021-02-10
109 thale cress Arabidopsis thaliana GCF_000001735.4_TAIR10.1 SAMN03081427 PRJNA10719 2018-03-15
110 thunder duke vine Tripterygium wilfordii GCF_013401445.1_ASM1340144v1 SAMN11634134 PRJNA542587 2020-07-13
111 tobacco N.attenuata Nicotiana attenuata GCF_001879085.1_NIATTr2 SAMN04590212 PRJNA316810 2016-11-15
112 tobacco N.tomentosiformis Nicotiana tomentosiformis GCF_000390325.2_Ntom_v01 SAMN02981530 PRJNA182501 2013-05-16
113 tomato Solanum lycopersicum GCF_000188115.4_SL3.0 SAMN02981290 PRJNA119 2018-04-18
114 tree cotton Gossypium arboreum GCF_000612285.1_Gossypium_arboreum_v1.0 SAMN02981570 PRJNA203683 2015-09-28
115 trilobed morning glory Ipomoea triloba GCF_003576645.1_ASM357664v1 SAMN08285276 PRJNA428241 2018-09-19
116 valley oak Quercus lobata GCF_001633185.1_ValleyOak3.0 SAMN10584531 PRJNA308314 2019-01-11
117 vegetable marrow Cucurbita pepo subsp. pepo GCF_002806865.1_ASM280686v2 SAMN07125871 PRJNA386743 2017-12-07
118 wax gourd Benincasa hispida GCF_009727055.1_ASM972705v1 SAMN08364809 PRJNA430006 2019-12-03
119 white yam Dioscorea cayenensis subsp. rotundata GCF_009730915.1_TDr96_F1_v2_PseudoChromosome.rev07_lg8_w22_25.fasta SAMD00039982 PRJDB8681 2019-11-25
120 wild Colombian cocoa Herrania umbratica GCF_002168275.1_ASM216827v2 SAMN06806157 PRJNA383741 2017-06-05
121 wild emmer wheat (Zavitan) Triticum dicoccoides GCF_002162155.1_WEW_v2.0 SAMN04448013 PRJNA310175 2019-02-04
122 wild strawberry Fragaria vesca subsp. vesca GCF_000184155.1_FraVesHawaii_1.0 SAMN00120060 PRJNA60037 2011-02-24
123 wild Malaysian banana Musa acuminata subsp. malaccensis GCF_000313855.2_ASM31385v2 SAMEA2272344 PRJEA82777 2012-11-14
124 wild cabbage Brassica oleracea var. oleracea GCF_000695525.1_BOL SAMN02584321 PRJNA217459 2014-05-27
125 wild olive Olea europaea var. sylvestris GCF_002742605.1_O_europaea_v1 SAMN05943011 PRJNA350614 2017-11-03
126 wild peanut A.ipaensis Arachis ipaensis GCF_000816755.2_Araip1.1 SAMN02982874 PRJNA258025 2017-04-25
127 wild peanut A.duranensis Arachis duranensis GCF_000817695.2_Aradu1.1 SAMN02982871 PRJNA258023 2017-04-25
128 wild tomato S.pennellii Solanum pennellii GCF_001406875.1_SPENNV200 SAMEA3283146 PRJEB5809 2014-07-11
129 wild soybean Glycine soja GCF_004193775.1_ASM419377v2 SAMN09862384 PRJNA486704 2019-02-21
130 wine grape Vitis vinifera GCF_000003745.3_12X SAMEA2272750 PRJEA18785 2009-12-07
131 winter squash Cucurbita maxima GCF_002738345.1_Cmax_1.0 SAMN06886671 PRJNA385310 2017-10-31
132 wood tobacco Nicotiana sylvestris GCF_000393655.1_Nsyl SAMN02981529 PRJNA182500 2013-05-16

Additional hubs with collections of assemblies
Collection Hub index pages: Assembly statistics: Track statistics:
Primates 31 assemblies assembly stats track stats
Mammals 133 assemblies assembly stats track stats
Birds 80 assemblies assembly stats track stats
Fishes 110 assemblies assembly stats track stats
other vertebrates 42 assemblies assembly stats track stats
Invertebrates 239 assemblies assembly stats track stats
Plants 132 assemblies assembly stats track stats
Fungi 355 assemblies assembly stats track stats
VGP - Vertebrate Genome Project 210 assemblies assembly stats track stats
legacy/superseded 23 assemblies assembly stats track stats