Doc-Alignment

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Cucurbitales genomes. We used V.vinifera as a reference, and by comparing homologous gene locus maps and Ks values between V.vinifera and other Cucurbitales, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We created a hierarchical lists of homologous genes using V.vinifera as a reference.
  The relevant gene ids can be obtained from the Cucurbitales blast and match under the Tools module. This link is Cucurbitales blast and match.

Orthogroup analysis platform
Valid last name is required.
    
Valid last name is required.
Select Vvi1 Blo1 Blo2 Bda1 Bda2 Bpe1 Bpe2 Bma1 Bma2 Cmo1 Cmo2 Cma1 Cma2 Car1 Car2 Sed1 Cpe1 Cpe2 Bhi1 Tan1 Cmetu1 Lac1 Hepe1 Mch1 Lcy1 Cla1 Cam1 Cec1 Cco1 Clacu1 Cmu1 Cre1 Cone1 Cone2 Cone3 Cone4 Lsi1 Csa1 Chy1 Cme1 Blo3 Blo4 Bda3 Bda4 Bpe3 Bpe4 Bma3 Bma4 Sed2 Cmo3 Cmo4 Cma3 Cma4 Car3 Car4 Cpe3 Cpe4 Bhi2 Tan2 Cmetu2 Lac2 Hepe2 Mch2 Lcy2 Cla2 Cam2 Cec2 Cco2 Clacu2 Cmu2 Cre2 Lsi2 Csa2 Chy2 Cme2
Vvi19g224 . . . . . . Bma10g00501 Bma13g00957 . Cmo04g00969 . . . . . . . . . . . . . . . . . . . . . . . Cone14ag1065 . . Csa03g00632 . . . . Bda05g00769 . . Bpe03g00835 . . . . . Cma04g00902 . . . . . Bhi11g00775 Tan01g1556 . . . . . . . . . . . . . . Chy06g01694 .
Vvi19g225 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g226 . . . . . Bpe02g01904 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g227 . . . . . . . Bma13g00958 . . Cma01g01207 Cma09g00867 Car01g01032 Car09g00780 Sed05g2568 Cpe06g00690 Cpe02g00703 Bhi09g03415 Tan01g4399 Cmetu07g0826 . . Mch11g1071 . Cla11g01764 Cam11g1830 Cec11g1851 Cco11g1858 Clacu11g1991 Cmu11g1800 Cre11g2207 Cone6ag0142 . Cone14ag1066 Cone15ag1055 . Csa04g02346 Chy07g00079 . . . . . . Bpe01g00429 . . . Cmo01g01260 Cmo09g00856 . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g228 . Blo03g01546 . Bda09g00505 . Bpe08g01025 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g229 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g230 . Blo03g01545 . Bda09g00504 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cone14ag1068 Cone15ag1057 . . . . . . . . . . Bma07g01177 Bma14g00237 . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g231 . Blo03g01544 . Bda09g00502 . Bpe08g01027 . . . . . Cma09g00871 . Car09g00783 Sed07g2511 Cpe06g00694 . Bhi09g03406 Tan01g4404 Cmetu07g1473 . Hepe01g1380 Mch11g1076 . Cla11g01768 Cam11g1834 Cec11g1855 Cco11g1862 Clacu11g1995 Cmu11g1804 Cre11g2212 Cone6ag0140 . . . Lsi04g01330 Csa04g02350 Chy07g00083 . . . . . . . Bma07g01180 . . . Cmo09g00859 . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g232 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g233 . . . . . . . . Cmo16g00844 Cmo04g00971 . . . . . . . . . . . . . . Cla10g00648 Cam10g0644 Cec10g0665 Cco10g0640 Clacu10g0667 Cmu10g1494 Cre10g0875 . . . Cone15ag1058 . Csa03g00629 . . . . . Bda12g00867 . . . . . . . Cma04g00905 Cma16g00781 Car04g00848 . Cpe14g00680 . . . . . . . . . . . . . . . Lsi05g00716 . Chy06g01699 .
   
Previous Page 2268 of 2365 Next

Gene_GFF

Select Chromosome Start End Strand Old_gene Gene Num
5 56169627 56169869 - Bda021919.1 Bda05g00769 769
9 6655046 6664860 - Bda031100.2 Bda09g00502 502
9 6686052 6686849 - Bda031102.1 Bda09g00504 504
9 6688689 6691049 - Bda031103.1 Bda09g00505 505
12 39176397 39179789 - Bda009393.1 Bda12g00867 867
9 86528638 86535048 - XM_039043200.1 Bhi09g03406 3406
9 86626113 86630652 - XM_039042128.1 Bhi09g03415 3415
11 20880885 20882890 - XM_039049363.1 Bhi11g00775 775
3 42953343 42958757 - BLOR12725 Blo03g01544 1544
3 43050170 43051375 - BLOR12726 Blo03g01545 1545
3 43051436 43052710 - BLOR12727 Blo03g01546 1546
7 46298169 46300685 + Bma026418.1 Bma07g01177 1177
7 46315577 46326237 + Bma026421.1 Bma07g01180 1180
10 5904333 5904578 + Bma004191.1 Bma10g00501 501
13 40740233 40740466 + Bma010056.1 Bma13g00957 957
13 40742368 40745014 + Bma010057.1 Bma13g00958 958
14 2865166 2867352 - Bma010648.1 Bma14g00237 237
1 2618107 2623024 - Bpe000414.2 Bpe01g00429 429
2 21015957 21023191 - Bpe009730.1 Bpe02g01904 1904
3 28243453 28243692 - Bpe025396 Bpe03g00835 835
8 12509530 12512043 + Bpe023149.1 Bpe08g01025 1025
8 12521256 12526587 + Bpe023151.1 Bpe08g01027 1027
10 10066683 10069671 - CaPI482276_10g006440.1 Cam10g0644 644
11 30834955 30854187 + CaPI482276_11g018300.1 Cam11g1830 1830
11 30867019 30873760 + CaPI482276_11g018340.1 Cam11g1834 1834
1 9786370 9791041 - Carg14696-RA Car01g01032 1032
4 4928072 4931265 + Carg00023-RA Car04g00848 848
9 4602238 4607583 + Carg17102-RA Car09g00780 780
9 4615881 4621969 + Carg17105-RA Car09g00783 783
10 8861373 8864388 - CcPI632755_10g006400.1 Cco10g0640 640
11 31273190 31278500 + CcPI632755_11g018580.1 Cco11g1858 1858
11 31291567 31298308 + CcPI632755_11g018620.1 Cco11g1862 1862
10 9302517 9305501 - CePI673135_10g006650.1 Cec10g0665 665
11 32714247 32719519 + CePI673135_11g018510.1 Cec11g1851 1851
11 32732206 32738934 + CePI673135_11g018550.1 Cec11g1855 1855
6 19624112 19628841 + Chy6G122220.1 Chy06g01694 1694
6 19659937 19663527 + Chy6G122270.1 Chy06g01699 1699
7 730455 736470 + Chy7G129090.1 Chy07g00079 79
7 745033 750168 + Chy7G129130.1 Chy07g00083 83
10 9354382 9357369 - ClG42_10g0066700.10 Clacu10g0667 667
11 30886769 30892017 + ClG42_11g0199100.10 Clacu11g1991 1991
11 30904800 30911197 + ClG42_11g0199500.10 Clacu11g1995 1995
10 9887272 9890559 - ClCG10G006920.1 Cla10g00648 648
11 31262144 31267687 + ClCG11G018090.1 Cla11g01764 1764
11 31280323 31289245 + ClCG11G018120.2 Cla11g01768 1768
1 8745100 8749716 - CmaCh01G012070.1 Cma01g01207 1207
4 4698330 4702294 + CmaCh04G009020.1 Cma04g00902 902
4 4707319 4711103 + CmaCh04G009050.1 Cma04g00905 905
9 4259120 4264734 + CmaCh09G008670.1 Cma09g00867 867
9 4272857 4278408 + CmaCh09G008710.1 Cma09g00871 871
16 4295809 4298447 + CmaCh16G007810.1 Cma16g00781 781
7 22059948 22065473 + PI0024312.3 Cmetu07g0826 826
7 22073887 22080177 + PI0023835.1 Cmetu07g1473 1473
1 10099072 10103761 - CmoCh01G012600.1 Cmo01g01260 1260
4 4930602 4932849 + CmoCh04G009690.1 Cmo04g00969 969
4 4940463 4941011 + CmoCh04G009710.1 Cmo04g00971 971
9 4421597 4426922 + CmoCh09G008560.1 Cmo09g00856 856
9 4436379 4441910 + CmoCh09G008590.1 Cmo09g00859 859
16 4453434 4456521 + CmoCh16G008440.1 Cmo16g00844 844
10 9970703 9973690 - CmPI595203_10g014940.1 Cmu10g1494 1494
11 30142347 30147593 + CmPI595203_11g018000.1 Cmu11g1800 1800
11 30160337 30166731 + CmPI595203_11g018040.1 Cmu11g1804 1804
6 707261 710838 - Conep06aG0014100.1 Cone6ag0140 140
6 723700 727587 - Conep06aG0014300.1 Cone6ag0142 142
14 8973876 8974124 + Conep14aG0108600.1 Cone14ag1065 1065
14 8974807 8982346 + Conep14aG0108700.1 Cone14ag1066 1066
14 8986828 8990153 - Conep14aG0108900.1 Cone14ag1068 1068
15 8740129 8743933 + Conep15aG0107700.1 Cone15ag1055 1055
15 8761227 8763974 - Conep15aG0107900.1 Cone15ag1057 1057
15 8768093 8770842 + Conep15aG0108000.1 Cone15ag1058 1058
2 4443901 4447246 + Cp4.1LG02g01690.1 Cpe02g00703 703
6 4303540 4308885 + Cp4.1LG06g06900.1 Cpe06g00690 690
6 4318081 4324445 + Cp4.1LG06g06930.1 Cpe06g00694 694
14 4468848 4472384 + Cp4.1LG14g00330.1 Cpe14g00680 680
10 9970288 9973278 - CrPI670011_10g008750.1 Cre10g0875 875
11 33796612 33815672 + CrPI670011_11g022070.1 Cre11g2207 2207
11 33835423 33842123 + CrPI670011_11g022120.1 Cre11g2212 2212
3 5443724 5447961 - CsaV3_3G006290.1 Csa03g00629 629
3 5468468 5471720 - CsaV3_3G006320.1 Csa03g00632 632
4 23910350 23916014 + CsaV3_4G033720.1 Csa04g02346 2346
4 23922362 23928535 + CsaV3_4G033760.1 Csa04g02350 2350
1 79022795 79028277 - Hsped.01g13800.1 Hepe01g1380 1380
4 21079852 21085391 - Lsi04G013300.1 Lsi04g01330 1330
5 9730106 9732859 - Lsi05G007160.1 Lsi05g00716 716
11 7471347 7476705 + MC11g0878 Mch11g1071 1071
11 7485320 7490631 + MC11g0882 Mch11g1076 1076
5 37514633 37519299 + Sed0022316.3 Sed05g2568 2568
7 40822146 40827018 + Sed0012358.2 Sed07g2511 2511
1 15865098 15867235 + Tan0013867.1 Tan01g1556 1556
1 109137770 109143424 + Tan0004565.1 Tan01g4399 4399
1 109180320 109186594 + Tan0014726.1 Tan01g4404 4404
19 2780603 2788637 + Vvi19g224 Vvi19g224 224
19 2789195 2790307 - Vvi19g225 Vvi19g225 225
19 2793367 2811295 - Vvi19g226 Vvi19g226 226
19 2820614 2830331 + Vvi19g227 Vvi19g227 227
19 2834796 2849364 + Vvi19g228 Vvi19g228 228
19 2853568 2853850 + Vvi19g229 Vvi19g229 229
19 2856126 2858877 + Vvi19g230 Vvi19g230 230
19 2889427 2899404 + Vvi19g231 Vvi19g231 231
19 2924505 2929619 - Vvi19g232 Vvi19g232 232
19 2944711 2949299 + Vvi19g233 Vvi19g233 233
       

DecoBrowse