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
Vvi1g31 . Blo16g01084 Bda01g02126 . Bpe13g01372 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cone6ag0524 . . . . . . . . . . . . Bma06g00740 . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g32 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g33 . . . . . Bpe10g00900 Bma14g01666 Bma15g00131 Cmo04g01789 Cmo18g01124 . Cma18g01103 . Car18g01017 Sed06g1778 Cpe09g00223 Cpe01g01507 Bhi07g01484 Tan04g0992 Cmetu10g1842 Lac13g0380 Hepe10g1799 . . Cla05g02390 . . Cco05g2637 Clacu05g2564 Cmu05g2421 Cre05g2538 Cone13ag0904 Cone19ag0901 . . Lsi04g00361 Csa05g02516 Chy10g01060 Cme10g00355 Blo06g00928 Blo11g00794 . . . . . . . . . Cma04g01704 . Car04g01739 . . . . . . . . . . . . . . . . . . . . .
Vvi1g34 Blo01g00454 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Bpe02g02314 Bma01g00123 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g35 . . . . . Bpe10g00899 . Bma15g00132 Cmo04g01788 Cmo18g01125 . Cma18g01104 . Car18g01018 . Cpe09g00222 Cpe01g01506 Bhi07g01487 . . . . . . Cla05g02391 Cam05g2568 Cec05g2601 . . . Cre05g2539 . . . . . Csa05g02515 Chy10g01059 Cme10g00356 Blo06g00927 . . . . . . . . . . Cma04g01703 . Car04g01738 . . . . . . . . . . . . . . . . . . . . .
Vvi1g36 . Blo16g01085 . Bda11g01176 Bpe13g01373 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cone9ag0537 . . . . . . . Bda11g01176 . . . Bma06g00739 . . . . . . . . Cpe07g00089 . . . . . . . . . . . . . . . . . .
Vvi1g37 . . . . Bpe13g01374 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cone6ag0526 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g38 Blo01g00453 . Bda01g02128 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cone6ag0528 Cone9ag0540 . . . . . . . . . Bpe02g02315 Bma01g00122 . . . . . . . . . Cpe07g00088 . . . . . . . . . . . . . . . . . .
Vvi1g39 . . . . . . Bma14g01665 . . Cmo18g01126 . Cma18g01105 . Car18g01019 Sed06g1777 Cpe09g00221 . Bhi07g01488 Tan04g0995 Cmetu10g0618 Lac13g0378 Hepe10g1796 . . Cla05g02392 . . Cco05g2639 Clacu05g2566 Cmu05g2423 Cre05g2540 . . . Cone9ag0542 Lsi04g00362 Csa05g02513 Chy10g01058 Cme10g00357 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g40 . Blo16g01086 . Bda11g01177 Bpe13g01375 . . . . . . . . . . . . . . . . . . . . . . . . . . Cone13ag0907 . . . . . . . . . . Bda11g01177 . . . Bma06g00738 . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Previous Page 4 of 2365 Next

Gene_GFF

Select Chromosome Start End Strand Old_gene Gene Num
1 57270631 57274129 + Bda004457.1 Bda01g02126 2126
1 57278439 57283694 - Bda004459.1 Bda01g02128 2128
11 12156585 12159249 + Bda007675.1 Bda11g01176 1176
11 12166417 12178700 + Bda007676.2 Bda11g01177 1177
7 43409320 43412667 + XM_039036489.1 Bhi07g01484 1484
7 43413484 43416428 - XM_039036488.1 Bhi07g01487 1487
7 43438032 43441059 - XM_039037362.1 Bhi07g01488 1488
1 5009974 5025291 + BLOR00453 Blo01g00453 453
1 5026821 5029808 + BLOR00454 Blo01g00454 454
6 32504511 32505500 + BLOR17510 Blo06g00927 927
6 32506857 32508630 - BLOR17511 Blo06g00928 928
11 12100187 12102060 - BLOR03670 Blo11g00794 794
16 39374989 39378411 + BLOR21871 Blo16g01084 1084
16 39382813 39385742 + BLOR21872 Blo16g01085 1085
16 39390826 39394961 + BLOR21873 Blo16g01086 1086
1 1215028 1220901 + Bma000287.1 Bma01g00122 122
1 1222294 1225281 + Bma000288.1 Bma01g00123 123
6 38371691 38383202 - Bma031293 Bma06g00738 738
6 38397233 38399536 - Bma031294 Bma06g00739 739
6 38402609 38404919 - Bma023726.1 Bma06g00740 740
14 35306120 35308087 + Bma012398.1 Bma14g01665 1665
14 35326287 35330502 - Bma012399.1 Bma14g01666 1666
15 1429254 1435022 + Bma013110.1 Bma15g00131 131
15 1436418 1436900 - Bma013111.1 Bma15g00132 132
2 23803620 23806604 - Bpe010130.1 Bpe02g02314 2314
2 23807401 23816110 - Bpe010131.1 Bpe02g02315 2315
10 14675395 14676276 + Bpe003203.1 Bpe10g00899 899
10 14677612 14679409 - Bpe003204.1 Bpe10g00900 900
13 18967612 18969962 + Bpe011032.1 Bpe13g01372 1372
13 18972938 18975506 + Bpe011033.1 Bpe13g01373 1373
13 18976052 18978724 - Bpe011034.1 Bpe13g01374 1374
13 18989345 18995473 + Bpe011035.1 Bpe13g01375 1375
5 33419246 33421781 + CaPI482276_05g025680.1 Cam05g2568 2568
4 9953307 9955999 + Carg14367-RA Car04g01738 1738
4 9956341 9958561 - Carg14366-RA Car04g01739 1739
18 10592467 10594522 + Carg17313-RA Car18g01017 1017
18 10595275 10597586 - Carg17312-RA Car18g01018 1018
18 10599956 10601923 - Carg17311-RA Car18g01019 1019
5 34514117 34516770 + CcPI632755_05g026370.1 Cco05g2637 2637
5 34523171 34525138 - CcPI632755_05g026390.1 Cco05g2639 2639
5 36860238 36863327 + CePI673135_05g026010.1 Cec05g2601 2601
10 15763689 15765659 + Chy10G182520.1 Chy10g01058 1058
10 15768191 15770522 + Chy10G182530.1 Chy10g01059 1059
10 15771276 15774042 - Chy10G182540.1 Chy10g01060 1060
5 33608684 33611410 + ClG42_05g0256400.10 Clacu05g2564 2564
5 33617801 33619768 - ClG42_05g0256600.10 Clacu05g2566 2566
5 35459494 35462594 + ClCG05G023690.1 Cla05g02390 2390
5 35463145 35466449 - ClCG05G023700.2 Cla05g02391 2391
5 35468731 35470698 - ClCG05G023710.1 Cla05g02392 2392
4 8556720 8558448 + CmaCh04G017030.1 Cma04g01703 1703
4 8558766 8561666 - CmaCh04G017040.1 Cma04g01704 1704
18 9025767 9028357 + CmaCh18G011030.1 Cma18g01103 1103
18 9028771 9030976 - CmaCh18G011040.1 Cma18g01104 1104
18 9033610 9035577 - CmaCh18G011050.1 Cma18g01105 1105
10 2300073 2303504 + MELO3C012155.2.1 Cme10g00355 355
10 2303991 2307203 - MELO3C012154.2.1 Cme10g00356 356
10 2309126 2311404 - MELO3C012153.2.1 Cme10g00357 357
10 19700042 19702260 + PI0022998.1 Cmetu10g0618 618
10 19707809 19711267 - PI0021509.1 Cmetu10g1842 1842
4 8988809 8992379 + CmoCh04G017880.1 Cmo04g01788 1788
4 8992727 8995696 - CmoCh04G017890.1 Cmo04g01789 1789
18 11602435 11604960 + CmoCh18G011240.1 Cmo18g01124 1124
18 11605507 11607668 - CmoCh18G011250.1 Cmo18g01125 1125
18 11610277 11612244 - CmoCh18G011260.1 Cmo18g01126 1126
5 33346471 33349198 + CmPI595203_05g024210.1 Cmu05g2421 2421
5 33355593 33357560 - CmPI595203_05g024230.1 Cmu05g2423 2423
6 2605048 2608676 + Conep06aG0053600.1 Cone6ag0524 524
6 2616413 2618417 - Conep06aG0053800.1 Cone6ag0526 526
6 2623351 2627074 - Conep06aG0054000.1 Cone6ag0528 528
9 2568874 2571251 + Conep09aG0054700.1 Cone9ag0537 537
9 2580053 2584917 - Conep09aG0055000.1 Cone9ag0540 540
9 2589165 2591357 - Conep09aG0055200.1 Cone9ag0542 542
13 7975384 7977814 + Conep13aG0093200.1 Cone13ag0904 904
13 7989801 7993436 + Conep13aG0093500.1 Cone13ag0907 907
19 7024991 7027769 + Conep19aG0092700.1 Cone19ag0901 901
1 8991372 8992310 + Cp4.1LG01g12140.1 Cpe01g01506 1506
1 8992939 8996236 - Cp4.1LG01g12030.1 Cpe01g01507 1507
7 425722 431162 + Cp4.1LG07g00810.1 Cpe07g00088 88
7 430584 436233 - Cp4.1LG07g00860.1 Cpe07g00089 89
9 1271822 1274675 + Cp4.1LG09g02090.1 Cpe09g00221 221
9 1276254 1278904 + Cp4.1LG09g02120.1 Cpe09g00222 222
9 1279208 1281751 - Cp4.1LG09g02150.1 Cpe09g00223 223
5 36697074 36699788 + CrPI670011_05g025380.1 Cre05g2538 2538
5 36700631 36702939 - CrPI670011_05g025390.1 Cre05g2539 2539
5 36706269 36708236 - CrPI670011_05g025400.1 Cre05g2540 2540
5 26709198 26711168 + CsaV3_5G033320.1 Csa05g02513 2513
5 26713734 26716155 + CsaV3_5G033340.1 Csa05g02515 2515
5 26716591 26720165 - CsaV3_5G033350.1 Csa05g02516 2516
10 54704264 54705028 + Hsped.10g17960.1 Hepe10g1796 1796
10 54712552 54715385 - Hsped.10g17990.1 Hepe10g1799 1799
13 2670290 2672419 + Lag0040174.1 Lac13g0378 378
13 2678257 2680991 - Lag0040176.1 Lac13g0380 380
4 3615606 3619041 + Lsi04G003610.1 Lsi04g00361 361
4 3625073 3627040 - Lsi04G003620.1 Lsi04g00362 362
6 42461082 42463736 + Sed0000601.1 Sed06g1777 1777
6 42465653 42469376 - Sed0003610.1 Sed06g1778 1778
4 8942015 8945259 + Tan0010191.1 Tan04g0992 992
4 8958905 8961812 - Tan0018029.1 Tan04g0995 995
1 419905 428372 + Vvi1g31 Vvi1g31 31
1 428380 428865 + Vvi1g32 Vvi1g32 32
1 433720 439652 + Vvi1g33 Vvi1g33 33
1 442140 445496 - Vvi1g34 Vvi1g34 34
1 448023 451702 - Vvi1g35 Vvi1g35 35
1 453462 457950 + Vvi1g36 Vvi1g36 36
1 459187 463238 - Vvi1g37 Vvi1g37 37
1 464305 474910 - Vvi1g38 Vvi1g38 38
1 475547 481438 - Vvi1g39 Vvi1g39 39
1 482029 495575 + Vvi1g40 Vvi1g40 40
       

DecoBrowse