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
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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
Vvi19g904 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g905 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g906 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g907 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g908 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g909 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g910 . . . . . . . Bma13g00905 Cmo16g00493 Cmo04g00693 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cme07g00770 Blo07g00996 . Bda05g00815 Bda12g00790 . . . . . . . Cma04g00645 Cma16g00458 Car04g00600 Car16g00416 Cpe14g00386 Cpe01g00582 . . . . . . . Cla07g01001 Cam07g1077 Cec07g1149 Cco07g1127 Clacu07g1051 Cmu07g1042 Cre07g1417 . . Chy07g01020 .
Vvi19g911 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g912 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g913 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Gene_GFF

Select Chromosome Start End Strand Old_gene Gene Num
5 56631553 56636186 + Bda021972.1 Bda05g00815 815
12 36876520 36880960 + Bda009291.1 Bda12g00790 790
7 29483805 29488507 + BLOR18928 Blo07g00996 996
13 39338556 39343039 - Bma009981.1 Bma13g00905 905
7 25148961 25156316 - CaPI482276_07g010770.1 Cam07g1077 1077
4 3438485 3442491 + Carg13105-RA Car04g00600 600
16 2573733 2577419 - Carg11383-RA Car16g00416 416
7 24868089 24875503 - CcPI632755_07g011270.1 Cco07g1127 1127
7 26767095 26774484 - CePI673135_07g011490.1 Cec07g1149 1149
7 15010096 15017215 - Chy7G138500.1 Chy07g01020 1020
7 24948777 24956199 - ClG42_07g0105100.10 Clacu07g1051 1051
7 26282228 26290481 - ClCG07G010530.2 Cla07g01001 1001
4 3303945 3307671 + CmaCh04G006450.1 Cma04g00645 645
16 2288525 2292825 - CmaCh16G004580.1 Cma16g00458 458
7 7071782 7089298 + MELO3C010548.2.1 Cme07g00770 770
4 3444717 3448373 + CmoCh04G006930.1 Cmo04g00693 693
16 2372003 2375411 - CmoCh16G004930.1 Cmo16g00493 493
7 25193561 25200994 - CmPI595203_07g010420.1 Cmu07g1042 1042
1 3370637 3374632 + Cp4.1LG01g00950.1 Cpe01g00582 582
14 2366234 2369979 - Cp4.1LG14g03240.1 Cpe14g00386 386
7 29117729 29125168 - CrPI670011_07g014170.1 Cre07g1417 1417
19 15949807 15951051 + Vvi19g904 Vvi19g904 904
19 16043351 16044854 - Vvi19g905 Vvi19g905 905
19 16083439 16094232 + Vvi19g906 Vvi19g906 906
19 16094251 16095562 + Vvi19g907 Vvi19g907 907
19 16133518 16143123 - Vvi19g908 Vvi19g908 908
19 16143330 16146668 + Vvi19g909 Vvi19g909 909
19 16295963 16310858 + Vvi19g910 Vvi19g910 910
19 16323932 16326346 + Vvi19g911 Vvi19g911 911
19 16375069 16380407 + Vvi19g912 Vvi19g912 912
19 16398331 16399024 + Vvi19g913 Vvi19g913 913
       

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