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
Vvi2g452 . . . . . . . Bma14g00573 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Blo19g00290 . . Bpe08g01455 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g453 . . . . . . . . . . . Cma15g01179 . Car15g01067 . . . . . . . . . . . . . . . . . . . . . . Csa05g00357 Chy09g01150 . Blo03g00382 . . . . Bpe11g00697 . . . . Cmo15g01239 . . . . . Cpe13g00195 Bhi12g00353 . . Lac11g2187 Hepe06g1617 . Lcy12g1741 Cla01g00335 Cam01g0348 Cec01g0344 Cco01g0356 Clacu01g0352 Cmu01g0332 Cre09g2178 Lsi09g00361 . . Cme09g01682
Vvi2g454 Blo02g01072 . Bda06g00059 . Bpe05g00611 . . . . Cmo16g01076 . . . . . Cpe14g00850 . . . . . . . . Cla10g00312 Cam10g0327 Cec10g0339 Cco10g0332 Clacu10g0323 Cmu10g1163 Cre10g0573 Cone8ag0349 Cone12ag0343 Cone6ag0723 Cone9ag0729 Lsi07g01361 . . Cme06g02646 . . . . . . . Bma12g00117 . . . . Cma16g01030 . Car16g00981 . . . . . . . . . . . . . . . . . Csa03g00335 Chy06g01990 .
Vvi2g455 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g456 . . . . Bpe05g00609 . . . Cmo06g00767 Cmo16g01077 . . . . . Cpe14g00851 . . . . . . . . Cla10g00311 Cam10g0324 Cec10g0337 Cco10g0331 Clacu10g0322 Cmu10g1161 Cre10g0571 Cone8ag0350 Cone12ag0345 . . . . . Cme06g02644 . . . . . . Bma05g00789 . . . . Cma06g00745 Cma16g01031 Car06g00665 Car16g00982 Cpe08g00776 . . . . . . . . . . . . . . . . Csa03g00332 Chy06g01992 .
Vvi2g457 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g458 . . . . . . . . . . . Cma15g01178 . Car15g01066 . . . . . . . . . . . . . . . . . . . . . . Csa05g00358 Chy09g01149 . . . . . . . . . . . . . . . . . Cpe13g00196 . . . . . . . Cla01g00336 Cam01g0349 Cec01g0345 Cco01g0357 Clacu01g0353 Cmu01g0333 Cre09g2177 Lsi09g00362 . . Cme09g01681
Vvi2g459 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g460 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cone9ag0728 . Csa05g00359 . . . . . . . . . . . . . . . . . . Cpe13g00197 Bhi12g00355 . . Lac11g2189 Hepe06g1619 . Lcy12g1743 Cla01g00337 Cam01g0350 Cec01g0346 Cco01g0358 Clacu01g0354 Cmu01g0334 Cre09g2176 Lsi09g00363 . . .
Vvi2g461 . . . . . Bpe07g00141 . . Cmo06g01154 . . . . . . . Cpe05g00275 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Bma12g00119 . . . Cma06g01129 . Car06g00965 . Cpe08g00491 . Bhi12g00356 . . . . . . . . . . . . . . . . .
   
Previous Page 186 of 2365 Next

Gene_GFF

Select Chromosome Start End Strand Old_gene Gene Num
6 611879 613910 + Bda023230.1 Bda06g00059 59
12 11253120 11256267 + XM_039018722.1 Bhi12g00353 353
12 11359693 11361191 + XM_039020212.1 Bhi12g00355 355
12 11371641 11382195 + XM_039018874.1 Bhi12g00356 356
2 41095876 41097665 + BLOR10802 Blo02g01072 1072
3 8932245 8935100 + BLOR11563 Blo03g00382 382
19 18322437 18324650 - BLOR09633 Blo19g00290 290
5 44848711 44850525 - Bma021890.1 Bma05g00789 789
12 1775173 1777182 - Bma006991.1 Bma12g00117 117
12 1796994 1803807 + Bma006993.1 Bma12g00119 119
14 6171373 6173406 + Bma011004.1 Bma14g00573 573
5 20057815 20059579 - Bpe025819 Bpe05g00609 609
5 20065461 20067655 + Bpe018027.1 Bpe05g00611 611
7 998637 1005501 + Bpe020952.1 Bpe07g00141 141
8 15277235 15279478 - Bpe023567.1 Bpe08g01455 1455
11 5365202 5367786 + Bpe004053.1 Bpe11g00697 697
1 3862002 3864668 + CaPI482276_01g003480.1 Cam01g0348 348
1 3865827 3866214 - CaPI482276_01g003490.1 Cam01g0349 349
1 3878766 3879959 + CaPI482276_01g003500.1 Cam01g0350 350
10 5393290 5402671 - CaPI482276_10g003240.1 Cam10g0324 324
10 5413862 5416330 + CaPI482276_10g003270.1 Cam10g0327 327
6 3958536 3962424 + Carg21617-RA Car06g00665 665
6 7406250 7408521 + Carg23900-RA Car06g00965 965
15 8385834 8386384 + Carg16677-RA Car15g01066 1066
15 8386679 8389758 - Carg16675-RA Car15g01067 1067
16 8328889 8330971 - Carg25289-RA Car16g00981 981
16 8332889 8336846 + Carg25288-RA Car16g00982 982
1 3523638 3526303 + CcPI632755_01g003560.1 Cco01g0356 356
1 3527445 3527831 - CcPI632755_01g003570.1 Cco01g0357 357
1 3545834 3546842 + CcPI632755_01g003580.1 Cco01g0358 358
10 3871861 3876108 - CcPI632755_10g003310.1 Cco10g0331 331
10 3894261 3896725 + CcPI632755_10g003320.1 Cco10g0332 332
1 3533658 3536324 + CePI673135_01g003440.1 Cec01g0344 344
1 3537432 3537819 - CePI673135_01g003450.1 Cec01g0345 345
1 3549116 3550379 + CePI673135_01g003460.1 Cec01g0346 346
10 4057056 4061353 - CePI673135_10g003370.1 Cec10g0337 337
10 4071788 4074239 + CePI673135_10g003390.1 Cec10g0339 339
6 23881656 23884082 - Chy6G125180.1 Chy06g01990 1990
6 23894730 23897120 + Chy6G125200.1 Chy06g01992 1992
9 13753067 13753446 + Chy9G168650.1 Chy09g01149 1149
9 13754587 13757215 - Chy9G168660.1 Chy09g01150 1150
1 3505236 3507903 + ClG42_01g0035200.10 Clacu01g0352 352
1 3509059 3509446 - ClG42_01g0035300.10 Clacu01g0353 353
1 3521901 3523094 + ClG42_01g0035400.10 Clacu01g0354 354
10 4155000 4160725 - ClG42_10g0032200.10 Clacu10g0322 322
10 4174969 4177373 + ClG42_10g0032300.10 Clacu10g0323 323
1 3610423 3613288 + ClCG01G003470.2 Cla01g00335 335
1 3613847 3615008 - ClCG01G003480.2 Cla01g00336 336
1 3627240 3628502 + ClCG01G003490.1 Cla01g00337 337
10 4093690 4104402 - ClCG10G003300.2 Cla10g00311 311
10 4117940 4121166 + ClCG10G003320.2 Cla10g00312 312
6 3762265 3766757 + CmaCh06G007450.1 Cma06g00745 745
6 7594601 7605527 + CmaCh06G011290.1 Cma06g01129 1129
15 7461716 7462528 + CmaCh15G011780.1 Cma15g01178 1178
15 7462460 7465739 - CmaCh15G011790.1 Cma15g01179 1179
16 7916477 7919406 - CmaCh16G010300.1 Cma16g01030 1030
16 7921314 7927558 + CmaCh16G010310.1 Cma16g01031 1031
6 33603727 33607597 - MELO3C013999.2.1 Cme06g02644 2644
6 33617964 33621480 + MELO3C014001.2.1 Cme06g02646 2646
9 21520485 21521121 + MELO3C005596.2.1 Cme09g01681 1681
9 21521867 21524979 - MELO3C005597.2.1 Cme09g01682 1682
6 3981478 3985899 + CmoCh06G007670.1 Cmo06g00767 767
6 8839688 8851508 + CmoCh06G011540.1 Cmo06g01154 1154
15 8531776 8536271 - CmoCh15G012390.1 Cmo15g01239 1239
16 7607452 7610359 - CmoCh16G010760.1 Cmo16g01076 1076
16 7612189 7616306 + CmoCh16G010770.1 Cmo16g01077 1077
1 3450902 3453569 + CmPI595203_01g003320.1 Cmu01g0332 332
1 3454725 3455112 - CmPI595203_01g003330.1 Cmu01g0333 333
1 3467574 3468767 + CmPI595203_01g003340.1 Cmu01g0334 334
10 4297438 4303204 - CmPI595203_10g011610.1 Cmu10g1161 1161
10 4317502 4319906 + CmPI595203_10g011630.1 Cmu10g1163 1163
6 3653542 3656136 + Conep06aG0074500.1 Cone6ag0723 723
8 1993941 1996247 - Conep08aG0036500.1 Cone8ag0349 349
8 2000543 2001489 + Conep08aG0036600.1 Cone8ag0350 350
9 3471824 3472606 - Conep09aG0074500.1 Cone9ag0728 728
9 3474157 3476941 + Conep09aG0074600.1 Cone9ag0729 729
12 1869649 1871976 - Conep12aG0035800.1 Cone12ag0343 343
12 1879292 1880482 + Conep12aG0036000.1 Cone12ag0345 345
5 1532983 1540680 + Cp4.1LG05g02520.1 Cpe05g00275 275
8 3167704 3179699 - Cp4.1LG08g01900.1 Cpe08g00491 491
8 6190537 6195254 - Cp4.1LG08g07650.1 Cpe08g00776 776
13 1511566 1515480 + Cp4.1LG13g01900.1 Cpe13g00195 195
13 1513700 1515718 - Cp4.1LG13g01980.1 Cpe13g00196 196
13 1518688 1519855 + Cp4.1LG13g01950.1 Cpe13g00197 197
14 7028941 7035095 - Cp4.1LG14g08470.1 Cpe14g00850 850
14 7036922 7040603 + Cp4.1LG14g08450.1 Cpe14g00851 851
9 40836627 40837818 - CrPI670011_09g021760.1 Cre09g2176 2176
9 40850254 40850641 + CrPI670011_09g021770.1 Cre09g2177 2177
9 40851798 40854464 - CrPI670011_09g021780.1 Cre09g2178 2178
10 5226731 5232373 - CrPI670011_10g005710.1 Cre10g0571 571
10 5246138 5248605 + CrPI670011_10g005730.1 Cre10g0573 573
3 2771649 2777922 - CsaV3_3G003320.1 Csa03g00332 332
3 2786630 2789037 + CsaV3_3G003350.1 Csa03g00335 335
5 2266595 2270113 + CsaV3_5G003570.1 Csa05g00357 357
5 2270280 2271244 - CsaV3_5G003580.1 Csa05g00358 358
5 2277983 2280127 + CsaV3_5G003590.1 Csa05g00359 359
6 67025985 67028934 + Hsped.06g16170.1 Hepe06g1617 1617
6 67041129 67042570 + Hsped.06g16190.1 Hepe06g1619 1619
11 37999166 38001793 + Lag0032825.1 Lac11g2187 2187
11 38017721 38018227 + Lag0032827.1 Lac11g2189 2189
12 38171164 38174291 + Maker00003102 Lcy12g1741 1741
12 38184070 38186319 + Maker00003035 Lcy12g1743 1743
7 19795820 19799039 + Lsi07G013610.1 Lsi07g01361 1361
9 3724664 3730267 + Lsi09G003610.1 Lsi09g00361 361
9 3729749 3730376 - Lsi09G003620.1 Lsi09g00362 362
9 3741755 3744797 + Lsi09G003630.1 Lsi09g00363 363
2 4454772 4457750 - Vvi2g452 Vvi2g452 452
2 4460707 4468028 + Vvi2g453 Vvi2g453 453
2 4469980 4478285 - Vvi2g454 Vvi2g454 454
2 4488149 4493569 + Vvi2g455 Vvi2g455 455
2 4494717 4500715 + Vvi2g456 Vvi2g456 456
2 4501193 4502162 + Vvi2g457 Vvi2g457 457
2 4502243 4503046 - Vvi2g458 Vvi2g458 458
2 4503159 4504290 + Vvi2g459 Vvi2g459 459
2 4509448 4511161 + Vvi2g460 Vvi2g460 460
2 4511890 4534148 + Vvi2g461 Vvi2g461 461
       

DecoBrowse