AGRP Logo

AGRP

Asteraceae Genomic Research Platform

Gene Search

Example:
Example:

Hierarchical alignments with the Helianthus annuus genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Helianthus annuus as a reference, and by comparing homologous gene locus maps and Ks values between Helianthus annuus and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 40×70, 843 macro-matrices.


Select Hean_1 Cobi_1 Bial_1 Bial_2 Dapi_1 Dapi_2 Hetu_1 Hetu_2 Hetu_3 Amtr_1 Smso_1 Smso_2 Taer_1 Fro_1 Fso_1 Ftr_1 Fra_1 Fli_1 Stre_1 Mimi_1 Hean_2 Cobi_2 Bial_3 Bial_4 Dapi_3 Dapi_4 Hetu_4 Hetu_5 Hetu_6 Amtr_2 Smso_3 Smso_4 Taer_2 Fro_2 Fso_2 Ftr_2 Fra_2 Fli_2 Stre_2 Mimi_2
Hean1g00261 Cobi2g02359 Bial10g01385 Bial22g00979 Dapi4g01924 Dapi20g01878 Hetu1g00228 Hetu2g00254 Hetu3g00222 Amtr12g00612 Smso1g03706 . . . . . . . Stre1g04409 Mimi16g02168 . . . . . . . . . . . . . . . . . . . .
Hean1g00262 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00263 Cobi2g02360 Bial10g01389 Bial22g00980 Dapi4g01925 Dapi20g01879 Hetu1g00229 Hetu2g00255 Hetu3g00223 Amtr12g00618 . Smso28g00433 . . . . . . Stre1g04410 . Hean11g02530 Cobi6g01054 Bial12g02712 Bial24g02555 . Dapi31g02033 Hetu32g02150 Hetu31g02141 Hetu33g02088 Amtr07g04585 . . . . . . . . . .
Hean1g00264 Cobi2g02361 Bial10g01390 Bial22g00981 Dapi4g01931 Dapi20g01880 Hetu1g00230 Hetu2g00256 Hetu3g00224 Amtr12g00625 Smso1g03710 Smso28g00432 Taer4g02500 Fro14g01360 Fso1g02220 Ftr2g00585 Fra18g01516 Fli3g00675 Stre1g04411 Mimi16g02170 Hean11g02528 Cobi6g01055 Bial12g02711 Bial24g02554 . Dapi31g02030 Hetu32g02149 Hetu31g02136 Hetu33g02079 Amtr07g04578 . . . . . . . . . .
Hean1g00265 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00266 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00267 Cobi2g02363 Bial10g01391 Bial22g00982 . . Hetu1g00232 Hetu2g00257 Hetu3g00225 . Smso1g03711 Smso28g00431 Taer4g02502 Fro14g01361 Fso1g02223 . Fra18g01519 Fli3g00674 Stre1g04412 Mimi16g02171 Hean11g02521 Cobi6g01056 . Bial24g02553 . Dapi31g02029 Hetu32g02144 Hetu31g02127 Hetu33g02076 Amtr07g04568 . . . . . . . . . .
Hean1g00268 Cobi2g02364 Bial10g01392 Bial22g00983 Dapi4g01933 Dapi20g01881 Hetu1g00233 Hetu2g00258 Hetu3g00226 Amtr12g01674 Smso1g03713 . Taer4g02503 Fro14g01362 Fso1g02224 Ftr2g00580 Fra18g01520 Fli3g00673 Stre1g04413 Mimi16g02172 . . . . . . . . . . . . . . . . . . . .
Hean1g00269 Cobi2g02365 Bial10g01393 . Dapi4g01934 Dapi20g01882 . Hetu2g00260 Hetu3g00228 Amtr12g01673 . . Taer4g02504 Fro14g01363 Fso1g02225 Ftr2g00579 Fra18g01521 Fli3g00672 Stre1g04414 . Hean11g02518 . Bial12g02710 . . Dapi31g02028 Hetu32g02143 Hetu31g02126 Hetu33g02075 Amtr07g04565 . Smso20g01602 . . . . . . . .
Hean1g00270 . Bial10g01394 Bial22g00985 Dapi4g01935 Dapi20g01883 Hetu1g00235 Hetu2g00261 Hetu3g00229 . Smso1g03715 . . . . . . . . Mimi16g02173 Hean11g02517 . . . . Dapi20g01883 Hetu32g02136 Hetu31g02125 Hetu33g02074 . . Smso20g01603 . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 96812093 96815999 + AtrifAMIRv0_Chr07g0497121 Amtr07g04565 4565
7 96857717 96860315 + AtrifAMIRv0_Chr07g0497151 Amtr07g04568 4568
7 97254968 97255714 - AtrifAMIRv0_Chr07g0497251 Amtr07g04578 4578
7 97573830 97586923 - AtrifAMIRv0_Chr07g0497321 Amtr07g04585 4585
12 18602963 18605416 - AtrifAMIRv0_Chr12g0723441 Amtr12g00612 612
12 18697533 18711579 + AtrifAMIRv0_Chr12g0723501 Amtr12g00618 618
12 18917449 18918216 - AtrifAMIRv0_Chr12g0723571 Amtr12g00625 625
12 39648990 39656459 + AtrifAMIRv0_Chr12g0734051 Amtr12g01673 1673
12 39657619 39659526 - AtrifAMIRv0_Chr12g0734061 Amtr12g01674 1674
10 13881902 13884254 - g86784.t1 Bial10g01385 1385
10 13896143 13900750 + g86780.t1 Bial10g01389 1389
10 13922252 13923007 - g86779.t1 Bial10g01390 1390
10 13955479 13957447 - g86778.t1 Bial10g01391 1391
10 13986180 13988344 + g86777.t1 Bial10g01392 1392
10 13989330 13995403 - g86776.t1 Bial10g01393 1393
10 14004403 14007114 - g86775.t1 Bial10g01394 1394
12 57299723 57301658 + g35909.t1 Bial12g02710 2710
12 57311811 57312455 + g35910.t1 Bial12g02711 2711
12 57329649 57335421 - g35911.t1 Bial12g02712 2712
22 9531706 9534051 - g147055.t1 Bial22g00979 979
22 9552749 9561313 + g147054.t1 Bial22g00980 980
22 9582395 9583156 - g147053.t1 Bial22g00981 981
22 9607734 9609680 - g147052.t1 Bial22g00982 982
22 9613441 9615609 + g147051.t1 Bial22g00983 983
22 9616595 9630702 - g147049.t1 Bial22g00985 985
24 56363121 56365056 + g68219.t1 Bial24g02553 2553
24 56388324 56389055 + g68220.t1 Bial24g02554 2554
24 56416354 56425261 - g68221.t1 Bial24g02555 2555
2 71664882 71667006 - h2tg000016l_1.g4887.t1 Cobi2g02359 2359
2 71687261 71691960 + h2tg000016l_1.g4886.t1 Cobi2g02360 2360
2 71799886 71800602 - h2tg000016l_1.g4885.t1 Cobi2g02361 2361
2 71918145 71920636 - h2tg000016l_1.g4883.t1 Cobi2g02363 2363
2 71925341 71927845 + h2tg000016l_1.g4882.t1 Cobi2g02364 2364
2 71928982 71933760 - h2tg000016l_1.g4881.t1 Cobi2g02365 2365
6 8454576 8465849 + h2tg000031l_1.g19367.t1 Cobi6g01054 1054
6 8481403 8482086 - h2tg000031l_1.g19368.t1 Cobi6g01055 1055
6 8494890 8496743 - h2tg000031l_1.g19369.t1 Cobi6g01056 1056
4 118220304 118223166 - h1tg000121l.g120192.t1 Dapi4g01924 1924
4 118288019 118300975 + h1tg000121l.g120191.t1 Dapi4g01925 1925
4 118365680 118366438 - h1tg000121l.g120185.t1 Dapi4g01931 1931
4 118499996 118503048 + h1tg000121l.g120183.t1 Dapi4g01933 1933
4 118503891 118509938 - h1tg000121l.g120182.t1 Dapi4g01934 1934
4 118511808 118521890 - h1tg000121l.g120181.t1 Dapi4g01935 1935
20 110254155 110257011 - h1tg000169l.g129519.t1 Dapi20g01878 1878
20 110302813 110315637 + h1tg000169l.g129518.t1 Dapi20g01879 1879
20 110382193 110382816 - h1tg000169l.g129517.t1 Dapi20g01880 1880
20 110532708 110535805 + h1tg000169l.g129516.t1 Dapi20g01881 1881
20 110537310 110543379 - h1tg000169l.g129515.t1 Dapi20g01882 1882
20 110549457 110553596 - h1tg000169l.g129514.t1 Dapi20g01883 1883
31 99935080 99941873 + h2tg000063l.g12113.t1 Dapi31g02028 2028
31 99965822 99970173 + h2tg000063l.g12114.t1 Dapi31g02029 2029
31 100138979 100139815 + h2tg000063l.g12115.t1 Dapi31g02030 2030
31 100325696 100334522 - h2tg000063l.g12118.t1 Dapi31g02033 2033
3 17662068 17668333 + FliAMIRv0_Chr03g0079411 Fli3g00672 672
3 17669226 17671499 - FliAMIRv0_Chr03g0079421 Fli3g00673 673
3 17689950 17692005 + FliAMIRv0_Chr03g0079431 Fli3g00674 674
3 17817674 17818480 + FliAMIRv0_Chr03g0079441 Fli3g00675 675
18 60060676 60061482 - FraAMIRv0_Chr18g0357131 Fra18g01516 1516
18 60082446 60084487 - FraAMIRv0_Chr18g0357161 Fra18g01519 1519
18 60088904 60091219 + FraAMIRv0_Chr18g0357171 Fra18g01520 1520
18 60092034 60098215 - FraAMIRv0_Chr18g0357181 Fra18g01521 1521
14 21573614 21574441 - FroAMIRv0_Chr14g0255141 Fro14g01360 1360
14 21595818 21597859 - FroAMIRv0_Chr14g0255151 Fro14g01361 1361
14 21605265 21607484 + FroAMIRv0_Chr14g0255161 Fro14g01362 1362
14 21608361 21614619 - FroAMIRv0_Chr14g0255171 Fro14g01363 1363
1 63156940 63157746 - FsoAMIRv0_Chr01g0022191 Fso1g02220 2220
1 63233951 63235813 - FsoAMIRv0_Chr01g0022221 Fso1g02223 2223
1 63261687 63263937 + FsoAMIRv0_Chr01g0022231 Fso1g02224 2224
1 63264788 63270948 - FsoAMIRv0_Chr01g0022241 Fso1g02225 2225
2 10357191 10363396 + FtrAMIRv0_Chr02g0034461 Ftr2g00579 579
2 10364263 10366575 - FtrAMIRv0_Chr02g0034471 Ftr2g00580 580
2 10424333 10425142 + FtrAMIRv0_Chr02g0034521 Ftr2g00585 585
1 6846639 6852013 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002981 Hean1g00261 261
1 6869462 6873565 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002991 Hean1g00262 262
1 6882634 6893151 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003001 Hean1g00263 263
1 6913174 6914249 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003011 Hean1g00264 264
1 6932857 6934072 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003021 Hean1g00265 265
1 7062190 7065929 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003031 Hean1g00266 266
1 7068814 7069284 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003041 Hean1g00267 267
1 7075076 7078894 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003051 Hean1g00268 268
1 7075167 7086375 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003061 Hean1g00269 269
1 7098074 7104360 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003071 Hean1g00270 270
11 111718580 111726623 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0495971 Hean11g02517 2517
11 111731762 111746895 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0495981 Hean11g02518 2518
11 111783582 111786843 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0496011 Hean11g02521 2521
11 112879780 112880586 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0496091 Hean11g02528 2528
11 113153661 113163176 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0496111 Hean11g02530 2530
1 8968505 8972986 - >Htub.h1tg003050l.g497.t1 Hetu1g00228 228
1 9045222 9055967 + >Htub.h1tg003050l.g498.t1 Hetu1g00229 229
1 9115641 9116426 - >Htub.h1tg003050l.g499.t1 Hetu1g00230 230
1 9221097 9221444 - >Htub.h1tg003050l.g501.t1 Hetu1g00232 232
1 9230839 9234629 + >Htub.h1tg003050l.g502.t1 Hetu1g00233 233
1 9235650 9243126 - >Htub.h1tg003050l.g504.t1 Hetu1g00235 235
2 9153742 9158447 - >Htub.h2tg002589l.g210.t1 Hetu2g00254 254
2 9175278 9186875 + >Htub.h2tg002589l.g209.t1 Hetu2g00255 255
2 9211214 9211999 - >Htub.h2tg002589l.g208.t1 Hetu2g00256 256
2 9283554 9284884 - >Htub.h2tg002589l.g207.t1 Hetu2g00257 257
2 9306825 9314874 + >Htub.h2tg002589l.g206.t1 Hetu2g00258 258
2 9315968 9324189 - >Htub.h2tg002589l.g204.t1 Hetu2g00260 260
2 9343098 9348265 - >Htub.h2tg002589l.g203.t1 Hetu2g00261 261
3 9297637 9302354 - >Htub.h1tg000727l.g125.t1 Hetu3g00222 222
3 9319173 9330770 + >Htub.h1tg000727l.g126.t1 Hetu3g00223 223
3 9355113 9355898 - >Htub.h1tg000727l.g127.t1 Hetu3g00224 224
3 9427453 9428783 - >Htub.h1tg000727l.g128.t1 Hetu3g00225 225
3 9450724 9458773 + >Htub.h1tg000727l.g129.t1 Hetu3g00226 226
3 9459867 9468088 - >Htub.h1tg000727l.g131.t1 Hetu3g00228 228
3 9486997 9492164 - >Htub.h1tg000727l.g132.t1 Hetu3g00229 229
31 121588791 121604340 + >Htub.h1tg001293l.g203.t1 Hetu31g02125 2125
31 121609751 121611409 + >Htub.h1tg001293l.g204.t1 Hetu31g02126 2126
31 121642888 121644603 + >Htub.h1tg001293l.g205.t1 Hetu31g02127 2127
31 122470357 122471109 + >Htub.h1tg001293l.g215.t1 Hetu31g02136 2136
31 122775233 122783251 - >Htub.h1tg001293l.g220.t1 Hetu31g02141 2141
32 123395206 123406914 + >Htub.h1tg000110l.g48.t1 Hetu32g02136 2136
32 123448121 123448809 + >Htub.h1tg000110l.g40.t1 Hetu32g02143 2143
32 123472382 123474065 + >Htub.h1tg000110l.g39.t1 Hetu32g02144 2144
32 124306699 124307451 + >Htub.h1tg000110l.g34.t1 Hetu32g02149 2149
32 124699541 124709494 - >Htub.h1tg000110l.g33.t1 Hetu32g02150 2150
33 116146948 116162679 + >Htub.h1tg000866l.g488.t1 Hetu33g02074 2074
33 116166261 116167889 + >Htub.h1tg000866l.g487.t1 Hetu33g02075 2075
33 116221469 116223152 + >Htub.h1tg000866l.g486.t1 Hetu33g02076 2076
33 116753193 116753945 + >Htub.h1tg000866l.g483.t1 Hetu33g02079 2079
33 117071363 117079252 - >Htub.h1tg000866l.g473.t1 Hetu33g02088 2088
16 84611446 84614423 - KAD3338238.1 Mimi16g02168 2168
16 84662976 84663746 - KAD3338240.1 Mimi16g02170 2170
16 84762048 84764628 - KAD3338241.1 Mimi16g02171 2171
16 84768290 84771333 + KAD3338242.1 Mimi16g02172 2172
16 84772229 84778765 - KAD3338243.1 Mimi16g02173 2173
1 123483324 123485719 - KAI3829669.1 Smso1g03706 3706
1 123593530 123594255 - KAI3829673.1 Smso1g03710 3710
1 123627551 123630103 - KAI3829674.1 Smso1g03711 3711
1 123637447 123639851 + KAI3829676.1 Smso1g03713 3713
1 123640567 123649322 - KAI3829678.1 Smso1g03715 3715
20 52650246 52651562 - KAI3742598.1 Smso20g01602 1602
20 52651585 52653701 - KAI3742599.1 Smso20g01603 1603
28 11500472 11507462 + KAI3682711.1 Smso28g00431 431
28 11535090 11535848 + KAI3682712.1 Smso28g00432 432
28 11548946 11555041 - KAI3682713.1 Smso28g00433 433
1 130755838 130759704 - Streb.1G044090.1 Stre1g04409 4409
1 130771885 130781658 + Streb.1G044100.1 Stre1g04410 4410
1 130816312 130817364 - Streb.1G044110.1 Stre1g04411 4411
1 130879041 130881551 - Streb.1G044120.1 Stre1g04412 4412
1 130887454 130890005 + Streb.1G044130.1 Stre1g04413 4413
1 130890941 130896752 - Streb.1G044140.1 Stre1g04414 4414
4 55512122 55512871 - >KAK1428279.1 Taer4g02500 2500
4 55567077 55569451 - >KAK1428281.1 Taer4g02502 2502
4 55579743 55581950 + >KAK1428282.1 Taer4g02503 2503
4 55583046 55591442 - >KAK1428283.1 Taer4g02504 2504
       
DecoBrowse