Statistics

Pair-wise dotplots

Dotplot type Number
Blastp 729 = 27 ✖ 27
Block 676 = 26 ✖ 26
Ks 676 = 26 ✖ 26

Collinear and KaKs

Type Number
MCScanX-Colinearity 729 = 27 ✖ 27
MCScanX-tandem 729 = 27 ✖ 27
KaKs 729 = 27 ✖ 27
ColinearScan 729 = 27 ✖ 27

Six event-related genes and genomic hybrid gene pairs

Events Genome Number
Caesalpinioideaeva common tetraploidy Senna tora 298
Lupine specific hexaploidy Lupinus albus 4,051
Lupine specific hexaploidy Lupinus angustifolius 2,514
Papilionoideae common tetraploidy Arachis duranensis 776
Papilionoideae common tetraploidy Amphicarpaea edgeworthii 1,043
Papilionoideae common tetraploidy Aeschynomene evenia 643
Papilionoideae common tetraploidy Arachis hypogaea 8,393
Papilionoideae common tetraploidy Arachis ipaensis 949
Papilionoideae common tetraploidy Arachis monticola 1,593
Papilionoideae common tetraploidy Abrus precatorius 1,724
Papilionoideae common tetraploidy Cicer arietinum 154
Papilionoideae common tetraploidy Cajanus cajan 1,658
Papilionoideae common tetraploidy Dalbergia odorifera 763
Papilionoideae common tetraploidy Glycine max 5,434
Papilionoideae common tetraploidy Glycine soja 4,878
Papilionoideae common tetraploidy Lupinus albus 2,513
Papilionoideae common tetraploidy Lupinus angustifolius 1,394
Papilionoideae common tetraploidy Lotus japonicus 254
Papilionoideae common tetraploidy Melilotus albus 888
Papilionoideae common tetraploidy Medicago truncatula 1,070
Papilionoideae common tetraploidy Pisum sativum 68
Papilionoideae common tetraploidy Phaseolus vulgaris 945
Papilionoideae common tetraploidy Vicia faba 825
Papilionoideae common tetraploidy Spatholobus suberectus 1,266
Papilionoideae common tetraploidy Trifolium pratense 802
Papilionoideae common tetraploidy Trifolium subterranum 887
Papilionoideae common tetraploidy Vigna radiata 611
Soybean specific tetraploidy Glycine max 5,948
Soybean specific tetraploidy Glycine soja 5,231
hybrid gene pairs Arachis hypogaea 7,020
hybrid gene pairs Arachis monticola 1,248
Bva_WGD Bauhinia variegata 123
Eudicot Common Hexaploidization Arachis duranensis 259
Eudicot Common Hexaploidization Amphicarpaea edgeworthii 364
Eudicot Common Hexaploidization Aeschynomene evenia 203
Eudicot Common Hexaploidization Arachis hypogaea 6236
Eudicot Common Hexaploidization Arachis ipaensis 313
Eudicot Common Hexaploidization Arachis monticola 1275
Eudicot Common Hexaploidization Abrus precatorius 569
Eudicot Common Hexaploidization Bauhinia variegata 2105
Eudicot Common Hexaploidization Cicer arietinum 253
Eudicot Common Hexaploidization Cajanus cajan 541
Eudicot Common Hexaploidization Dalbergia odorifera 271
Eudicot Common Hexaploidization Glycine max 7828
Eudicot Common Hexaploidization Glycine soja 7117
Eudicot Common Hexaploidization Lupinus albus 5179
Eudicot Common Hexaploidization Lupinus angustifolius 3176
Eudicot Common Hexaploidization Lotus japonicus 429
Eudicot Common Hexaploidization Melilotus albus 271
Eudicot Common Hexaploidization Medicago truncatula 336
Eudicot Common Hexaploidization Pisum sativum 120
Eudicot Common Hexaploidization Phaseolus vulgaris 287
Eudicot Common Hexaploidization Vicia faba 368
Eudicot Common Hexaploidization Spatholobus suberectus 417
Eudicot Common Hexaploidization Senna tora 555
Eudicot Common Hexaploidization Trifolium pratense 646
Eudicot Common Hexaploidization Trifolium subterranum 275
Eudicot Common Hexaploidization Vigna radiata 177

Gene Collinearity list related data statistics

Reference Number of rows Number of columns
Phaseolus vulgaris 27,996 62
Vitis vinifera 28,164 189

Number of structural domains

Genome Number of genes Number of structural domains
Arachis_duranensis 42,921 4,099
Amphicarpaea_edgeworthii 35,422 4,052
Aeschynomene_evenia 36,627 4,123
Arachis_hypogaea 92,171 4,151
Arachis_ipaensis 46,889 4,100
Arachis_monticola 66,393 4,063
Abrus_precatorius 36,966 4,119
Bauhinia_variegata 48,879 4,160
Cicer_arietinum 33,352 4,111
Cajanus_cajan 37,938 4,042
Dalbergia_odorifera 35,460 4,053
Glycine_max 70,061 4,119
Glycine_soja 65,800 4,141
Lupinus_albus 46,468 4,094
Lupinus_angustifolius 43,542 3,993
Lotus_japonicus 36,669 4,063
Melilotus_albus 50,158 4,135
Medicago_truncatula 47,125 4,162
Pisum_sativum 35,686 4,021
Phaseolus_vulgaris 37,573 4,118
Spatholobus_suberectus 35,671 4,038
Senna_tora 40,085 4,025
Trifolium_pratense 48,418 4,124
Trifolium_subterranum 51,203 4,088
Vigna_radiata 32,632 3,887
Vitis_vinifera 34,670 4,030

Gene duplication type

Genome WGD TD PD TRD DSD
Arachis duranensis 4,865 2,037 1,525 9,965 26,002
Amphicarpaea edgeworthii 6,394 2,383 1,055 6,052 18,877
Aeschynomene evenia 6,654 1,752 807 9,678 22,370
Arachis hypogaea 38,758 4,207 3,057 11,225 55,186
Arachis ipaensis 4,571 2,330 2,080 11,304 31,335
Arachis monticola 11,324 2,483 3,563 24,791 59,365
Abrus precatorius 7,550 1,818 552 5,703 17,421
Cicer arietinum 4,688 1,717 780 6,599 17,327
Cajanus cajan 6,912 2,325 1,356 6,874 20,353
Dalbergia odorifera 7,470 1,860 1,111 6,696 19,260
Glycine max 39,585 2,540 1,280 10,184 40,400
Glycine soja 36,585 2,813 1,126 7,063 36,554
Lupinus albus 19,306 1,443 1,222 11,078 31,574
Lupinus angustifolius 13,846 1,434 485 7,361 22,647
Lotus japonicus 4,956 1,951 809 6,572 18,716
Melilotus albus 4,212 4,026 2,792 8,061 33,061
Medicago truncatula 4,704 4,249 1,590 7,119 24,747
Pisum sativum 1,059 2,452 1,547 5,394 27,297
Phaseolus vulgaris 5,682 2,606 1,112 6,405 19,713
Spatholobus suberectus 7,760 2,101 1,400 6,537 19,749
Trifolium pratense 5,903 3,737 1,614 8,932 26,100
Trifolium subterranum 4,217 2,914 1,918 9,683 29,777
Vigna radiata 4,160 1,860 617 5,781 16,002
Senna tora 9,777 2,162 2,343 9,743 29,250
Bauhinia variegata 21,275 2,353 4,187 2,828 7,243
Vitis vinifera 2,715 2,964 1,941 5,590 18,636

Statistical information for direct homology group analysis

Species Number of genes Number of genes in orthogroups Number of unassigned genes Percentage of genes in orthogroups Percentage of unassigned genes Number of orthogroups containing species Percentage of orthogroups containing species Number of species-specific orthogroups Number of genes in species-specific orthogroups Percentage of genes in species-specific orthogroups
Arachis duranensis 33,238 32,159 1,079 96.8 3.2 18,719 45.7 95 239 0.7
Amphicarpaea edgeworthii 27,699 26,227 1,472 94.7 5.3 15,880 38.7 160 413 1.5
Aeschynomene evenia 30,827 28,822 2,005 93.5 6.5 15,549 37.9 508 4,135 13.4
Arachis hypogaea 65,593 64,612 981 98.5 1.5 19,101 46.6 263 1,874 2.9
Arachis ipaensis 38,608 37,206 1,402 96.4 3.6 19,988 48.8 171 445 1.2
Arachis monticola 69,883 67,087 2,796 96 4 22,552 55 2,010 8,837 12.6
Abrus precatorius 24,427 24,318 109 99.6 0.4 14,869 36.3 24 194 0.8
Bauhinia variegata 37,886 35,458 2,428 93.6 6.4 16,652 40.6 401 1,734 4.6
Cicer arietinum 24,711 23,805 906 96.3 3.7 15,414 37.6 168 607 2.5
Cajanus cajan 28,222 27,008 1,214 95.7 4.3 16,023 39.1 221 652 2.3
Dalbergia odorifera 29,344 26,738 2,606 91.1 8.9 16,364 39.9 264 669 2.3
Glycine max 51,824 48,008 3,816 92.6 7.4 18,656 45.5 485 1,306 2.5
Glycine soja 46,722 46,225 497 98.9 1.1 16,703 40.7 46 166 0.4
Lupinus albus 41,277 39,246 2,031 95.1 4.9 15,730 38.4 341 3,349 8.1
Lupinus angustifolius 29,986 29,728 258 99.1 0.9 14,306 34.9 32 80 0.3
Lotus japonicus 26,152 25,142 1,010 96.1 3.9 15,110 36.9 260 979 3.7
Melilotus albus 41,853 39,902 1,951 95.3 4.7 17,386 42.4 686 3,067 7.3
Medicago truncatula 31,727 31,271 456 98.6 1.4 15,855 38.7 136 536 1.7
Pisum sativum 38,312 33,691 4,621 87.9 12.1 16,295 39.7 1,081 6,873 17.9
Phaseolus vulgaris 27,996 27,014 982 96.5 3.5 15,863 38.7 67 238 0.9
Spatholobus suberectus 29,597 27,169 2,428 91.8 8.2 16,250 39.6 225 596 2
Senna tora 44,405 36,133 8,272 81.4 18.6 16,166 39.4 1,342 9,303 21
Trifolium pratense 33,414 32,962 452 98.6 1.4 15,789 38.5 216 970 2.9
Trifolium subterranum 36,691 35,408 1,283 96.5 3.5 16,403 40 217 1,031 2.8
Vigna radiata 22,158 21,895 263 98.8 1.2 13,436 32.8 56 309 1.4
Vitis vinifera 28,164 24,338 3,826 86.4 13.6 14,929 36.4 616 2,203 7.8

Number of structural domains

Genome Number of gene famly
Arachis duranensis 18,203
Amphicarpaea edgeworthii 15,469
Aeschynomene evenia 15,185
Arachis hypogaea 18,202
Arachis ipaensis 19,455
Arachis monticola 21,476
Abrus precatorius 14,533
Bauhinia variegata 16,085
Cicer arietinum 15,027
Cajanus cajan 15,577
Dalbergia odorifera 15,796
Glycine max 18088
Glycine soja 16,269
Lupinus albus 15,213
Lupinus angustifolius 13,895
Lotus japonicus 14,716
Melilotus albus 16,671
Medicago truncatula 15,299
Pisum sativum 15,775
Phaseolus vulgaris 15,404
Spatholobus suberectus 15737
Senna tora 15,732
Trifolium pratense 15,252
Trifolium subterranum 15,606
Vigna radiata 13,137
Vitis vinifera 14,506

Number of structural domains

Order Number
Number of species 26
Number of genes 940,716
Number of genes in orthogroups 89,4037
Number of unassigned genes 46,679
Percentage of genes in orthogroups 95.0
Percentage of unassigned genes 5.0
Number of orthogroups 38,690
Number of species-specific orthogroups 10,088
Number of genes in species-specific orthogroups 48,016
Percentage of genes in species-specific orthogroups 5.1
Mean orthogroup size 23.1
Median orthogroup size 7.0
G50 (assigned genes) 48
G50 (all genes) 45
O50 (assigned genes) 4,998
O50 (all genes) 5,500
Number of orthogroups with all species present 6,669
Number of single-copy orthogroups 2

Statistics of the number of non-coding RNA (ncRNA)

Species Number
Arachis duranensis7,466
Amphicarpaea edgeworthii1,672
Aeschynomene evenia1,969
Arachis hypogaea12,617
Arachis ipaensis4,044
Arachis monticola6,076
Abrus precatorius6,693
Bauhinia variegata7,336
Cicer arietinum1,401
Cajanus cajan2,597
Dalbergia odorifera2,845
Glycine max5,828
Glycine soja5,112
Lupinus albus5,438
Lupinus angustifolius4,204
Lotus japonicus5,747
Melilotus albus4,574
Medicago truncatula12,002
Pisum sativum780
Phaseolus vulgaris2,078
Spatholobus suberectus2,766
Senna tora1,096
Trifolium pratense7,586
Trifolium subterranum1,894
Vigna radiata1,511

Statistics of the number of transposable elements

order ClassI ClassII ClassIII_Helitron ClassII_DNA_CACTA_MITE ClassII_DNA_CACTA_nMITE ClassII_DNA_CACTA_unknown ClassII_DNA_Harbinger_MITE ClassII_DNA_Harbinger_nMITE ClassII_DNA_Harbinger_unknown ClassII_DNA_hAT_MITE ClassII_DNA_hAT_nMITE ClassII_DNA_hAT_unknown ClassII_DNA_Mutator_MITE ClassII_DNA_Mutator_nMITE ClassII_DNA_Mutator_unknown ClassII_DNA_P_nMITE ClassII_DNA_TcMar_MITE ClassII_DNA_TcMar_nMITE ClassII_DNA_TcMar_unknown ClassII_MITE ClassII_nMITE ClassI_LTR ClassI_LTR_Copia ClassI_LTR_Gypsy ClassI_nLTR ClassI_nLTR_DIRS ClassI_nLTR_LINE_I ClassI_nLTR_LINE_L1 ClassI_nLTR_PLE ClassI_nLTR_SINE_tRNA Low_complexity Satellite Simple_repeat unknown Total
Arachis duranensis29,5713,1938,9902,62811,170013,69113,106080,90277,3613,73424,285106,8071,707017,74425,37484129,47666,1043,54643,994535,5370022,84404,3932,47943,7570175,14955,2141,403,597
Amphicarpaea edgeworthii4,8296351,5261,3517,205015,0424,28117533,61152,3561,24432,42423,094023317,3913,126027,93633,0842,16038,46243,5801046232864,60874979422,3010105,11015,015493,335
Aeschynomene evenia5,250026,0031,59735,413010,68512,892043,07038,73339031,64232,646545029,8575,3332,56432,20044,3965,77927,28269,07610339622,81693389718,1910112,53825,846616,778
Arachis hypogaea70,33810,40722,1576,34226,529032,46130,8230187,714186,8798,28357,637257,3073,694043,27662,8482,39371,051163,8568,44299,7191,147,92700052,3059,0747,74298,8160478,235147,6733,293,928
Arachis ipaensis41,9435,87811,1083,20614,837015,63114,887082,01393,5343,99327,847128,5531,734020,93934,2571,44533,36082,2364,62754,844692,00400029,5454,4894,82145,5110191,71980,2951,725,256
Arachis monticola63,5459,76821,3366,07326,032031,07029,5590178,124180,5757,96253,478248,1863,626041,00258,4972,32666,018155,8528,21697,0301,122,68800050,2108,9597,464107,9840512,099139,5483,237,227
Abrus precatorius2,1502851,6713944,50309,1443,475044,67433,99642016,95510,5010029,2495,7031,06631,76420,5333,72011,01462,8251211,0692,5165,9431,03860628,3820112,66321,896468,276
Bauhinia variegata5,15525938905,15306,6993,682027,08329,5673288,31410,479052119,0345,0943326,15326,6263,99312,99438,4254330996,3262,74552921,5230107,22623,090391,952
Cicer arietinum9,3177369,9337,0077,1191,18723,3626,615912132,608114,2073,84941,91249,354974046,08514,136062,79749,98412,27362,737227,1357284033,8266,1805,5881,76133,6040172,08273,2721,181,683
Cajanus cajan3,13739010,1944,02717,494010,89210,019094,532102,1841,22448,70867,438154044,83731,938045,09767,1505,25166,96675,6061,6727003,6673,8311,89726,0971124,99060,546930,009
Dalbergia odorifera7,47070212,1281,89236,497029,11511,394091,65883,3525,17346,18660,513183063,44720,001062,61273,2717,96144,900178,4531,4813081,2278,46513,2174,65229,9730164,77572,5521,133,558
Glycine max11,31205,9842,95821,310030,08517,116092,33649,9092,68753,30657,936039669,29028,13147266,06053,6596,94288,432227,67502,77216312,3016,4881,78353,5070245,16168,0531,276,224
Glycine soja11,50106,1213,01321,785030,30317,660093,49150,2012,70954,07359,259039470,19529,72748269,65054,8357,08389,867235,81402,85416812,4786,5581,82354,1590248,11970,8821,305,204
Lupinus albus6,770020,9625455,053012,11613,71717768,91164,2634,48431,37952,379465058,10720,645043,17945,1984,09854,199169,6180005,0234304,84416,853091,24072,993867,648
Lupinus angustifolius8,040012,3227039,283016,9527,59218982,770103,8358,82238,01131,5751,082070,88922,011053,03592,9276,34696,997193,23500010,5704896,27026,9530126,50080,7331,108,131
Lotus japonicus1,56601,9461,1244,42608,4035,083046,06631,1567811,49114,87326419133,0364,525024,59427,1131,93513,73162,507001927,7691,13058428,2190112,70626,525471,233
Melilotus albus9,9428896,8342,59519,365048,29624,2405,402112,227195,3032,126106,26376,3175,924090,33635,5924,59082,51992,22918,177188,724364,056352019456,05811,4886,02867,3860331,209117,6722,082,333
Medicago truncatula6,6008086,4712,06413,185024,31114,1354,17074,60365,3851,55273,24148,4844,003065,57522,73164044,43556,5846,97843,588102,095357013912,9174,3443,70521,0230104,13066,929895,182
Pisum sativum24,9131,8037,7453,714102,876034,498170,8446,58887,741129,5883,39822,355141,50808,56225,048135,0711,05142,853180,49865,525362,0241,586,2654,62436,3553,15828,58342,2126,93152,9491313,620226,8373,859,738
Phaseolus vulgaris4,81601,72397011,51506,50410,97821547,80053,5871,15116,41519,8541,128019,81218,34197333,88233,7316,03058,627141,0651,3820023,7672,5041,08427,4120111,42452,002708,692
Spatholobus suberectus15,83069123,9902,13564,478027,13117,932400120,859214,3215,43857,374182,10089530840,48730,489602101,884174,0197,44568,440175,2296720013,71417,8932,35743,6530215,737106,0861,732,589
Senna tora8,19190518,2411,05122,141019,39316,378072,90772,5701,95979,23794,4836,610020,97411,104032,01246,8945,26423,947141,668166036518,5703,1744,49422,1710152,53552,555949,959
Trifolium pratense6,63410315,5955,1315,495033,3274,8390121,65654,3623,07066,74650,8461,024069,39725,1469454,66250,5524,16050,442103,86716086011,7211,7469,94325,0430130,59361,965968,405
Trifolium subterranum7,3299114,7556,2695,273032,6315,4890124,84559,7902,31163,79950,4591,352077,72126,6238858,56551,2664,81579,45390,165321116016,4342,6488,63920,209095,54857,191964,195
Vigna radiata6,9821,0302,3291,66212,75106,8179,2582643,30767,5891,41029,98453,13825624513,45223,473025,27433,9922,50754,057121,7596214,44203,7774,6701,29030,3070133,30061,071750,776
Total373,13138,573270,45368,451510,8881,187528,559475,99418,2542,185,5082,204,60377,7951,093,0621,928,08935,62010,8501,097,180699,91619,6601,221,0681,776,589213,2731,832,4707,908,27413,29749,13735,239403,747160,79093,417965,98324,668,4081,836,44132,815,908

Statistics of the number of Transcription Factors Browse By Family

Species AP2 ARF ARR-B B3 BBR-BPC BES1 bHLH bZIP C2H2 C3H CAMTA CO-like CPP DBB Dof E2F/DP EIL ERF FAR1 G2-like GATA GeBP GRAS GRF HB-other HB-PHD HD-ZIP HRT-like HSF LBD LFY LSD MIKC_MADS M-type_MADS MYB MYB_related NAC NF-X1 NF-YA NF-YB NF-YC Nin-like NZZ/SPL RAV S1Fa-like SAP SBP SRS STAT TALE TCP Trihelix VOZ Whirly WOX WRKY YABBY ZF-HD
SpeciesAP2ARFARR-BB3BBR-BPCBES1bHLHbZIPC2H2C3HCAMTACO-likeCPPDBBDofE2F/DPEILERFFAR1G2-likeGATAGeBPGRASGRFHB-otherHB-PHDHD-ZIPHRT-likeHSFLBDLFYLSDMIKC_MADSM-type_MADSMYBMYB_relatedNACNF-X1NF-YANF-YBNF-YCNin-likeNZZ/SPLRAVS1Fa-likeSAPSBPSRSSTATTALETCPTrihelixVOZWhirlyWOXWRKYYABBYZF-HD
Arachis duranensis25301275510178731134711101210389101392515326961813244125522438281399985210151315132118181283139241491818
Amphicarpaea edgeworthii23121039671557912344613710377813840473345481025011572528221471104031118121103212591211738331695911
Aeschynomene evenia23291147571627110839812893497133103453345110834812648234036124877927251312223120100252839231788822
Arachis hypogaea49562312910163371532117913241914771813281573935012102192168704510848825329213916441631263135423724257507445301721734
Arachis ipaensis3032116461018582110511310178401081504436025452912344122532439391328987210161321032119151263838241592820
Arachis monticola33331591516239113135691520138511312131631723397012173691307647593719912312951521212826212819239315047161401514
Abrus precatorius26311827461867611748813684166155324930451983551295524482017260903921131303212491322940331896818
Bauhinia variegata2733145281120699138598217104511718547634412801410459233582550452118512721326171424223010238375533241031222
Cicer arietinum242713383514270114417958375613123452913478102512195114384313056813822121013212081222336231778920
Cajanus cajan252915425518576127451010694276157305331971107254126561539381739691313231615033124101332641331895920
Dalbergia odorifera222713436618377124428136939971486463246110935112654253823149669739211312033122912826412317100819
Glycine max5057356811173491462418415231217781514295661036314134182061041569148895830716718352241262805424722164637677331821639
Glycine soja4957295710153411472297714231018781411294751006311102221561011508528876632113817152032242705424321163597577321741649
Lupinus albus35391945111222012116864720914621311180163814494816152731337231054752068512321523151526613412137376044301061437
Lupinus angustifolius3240164310102191211526881711156012111712973391052151536412870385051207751152102415162531321014242594326971418
Lotus japonicus242621494516172102438116836871258038247568103501214415365314472813817111403302091232634231580717
Melilotus albus273831914715881155517987366716127243409558122513256314421211608610438251514032121912423382417991018
Medicago truncatula243626734716772117488106839791731364433560892493245614428017178903720131003212391232237231789815
Pisum sativum243318458715064985061096335612624392574297241133411437521127172372081003112071172134221583815
Phaseolus vulgaris27271542571727912438813611427714927503255510735713050142949168798929201512232123101332740331691819
Spatholobus suberectus2326939371868411744812593877149195131862119357027541445131717191292312121331241013230383318991016
Senna tora262611413915880834971469407914172543875491334712459253678130106103210223211232125802224323215801117
Trifolium pratense283040984816870128491110993767168236502916568122492236415486416775902721171103222091252541341999815
Trifolium subterranum2530255844145711125110999367715613848308498132442216214387615067833920151402312291222334331884714
Vigna radiata2120142856148591043799573577134554425645873491303543218148547028161310103111880272138221665517
Vitis vinifera141912415812056874538682273109323821348911232117461229451336279371510824211941192034221259714
Total6487443851,2401362024,4392,0363,0061,1802033171942251,0232051893,7123,1421,3027981761,420251257681,306266331,353441181,0461,0803,9652,0382,2926424650635535120805925579268237297101,01469824362,330233478
    
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Valid last name is required.