Target lists come from precomputed motif hits in 4 kb promoters and the current TF-to-motif relationships. They are motif-supported candidate targets, not verified direct regulatory relationships in Red Sage. Different TFs can share similar motifs; expression, genetic, and binding experiments are required for confirmation.
The table is built from the current Red Sage TF motif and precomputed target index. Search by TF family, standard Gene ID, legacy ID, NCBI/GeneID, Protein ID, or motif ID. Click any gene/protein ID to open the Gene Card, or use Search targets to open the target-gene result page.
| TF ID | Family | Motifs | Target genes | Sites | Actions |
|---|---|---|---|---|---|
| C2H2 | 1MP00592 |
8519 | 9901 | Search targets | |
| C2H2 | 1MP00592 |
8519 | 9901 | Search targets | |
| ARR-B | 1MP00010 |
8344 | 9778 | Search targets | |
| NAC | 1MP00059 |
8333 | 9940 | Search targets | |
| MYB | 1MP00296 |
8304 | 9873 | Search targets | |
| MYB | 1MP00114 |
8151 | 9897 | Search targets | |
| WRKY | 1MP00408 |
8149 | 9902 | Search targets | |
| Nin-like | 1MP00449 |
8096 | 9453 | Search targets | |
| WRKY | 1MP00209 |
8083 | 9910 | Search targets | |
| MYB | 1MP00627 |
8075 | 9835 | Search targets | |
| WRKY | 1MP00450 |
8044 | 9901 | Search targets | |
| ERF | 1MP00558 |
8044 | 9762 | Search targets | |
| MIKC_MADS | 1MP00096 |
8019 | 9914 | Search targets | |
| MYB | 1MP00476 |
7981 | 9904 | Search targets | |
| NAC | 1MP00221 |
7965 | 9903 | Search targets | |
| WRKY | 1MP00069 |
7882 | 9917 | Search targets | |
| MYB | 1MP00406 |
7839 | 9917 | Search targets | |
| TALE | 1MP00670 |
7758 | 9906 | Search targets | |
| SBP | 1MP00555 |
7648 | 9805 | Search targets | |
| ARF | 1MP00021 |
7629 | 9812 | Search targets | |
| MYB | 1MP00132 |
7583 | 9926 | Search targets | |
| MIKC_MADS | 1MP00609 |
7575 | 9941 | Search targets | |
| ERF | 1MP00529 |
7559 | 9247 | Search targets | |
| MYB | 1MP00510 |
7526 | 9799 | Search targets | |
| NAC | 1MP00058 |
7440 | 9855 | Search targets | |
| bZIP | 1MP00303 |
7416 | 9868 | Search targets | |
| MYB_related | 1MP00565 |
7412 | 9785 | Search targets | |
| ERF | 1MP00026 |
7408 | 9854 | Search targets | |
| WRKY | 1MP00071 |
7408 | 9764 | Search targets | |
| ARF | 1MP00033 |
7406 | 9827 | Search targets | |
| bHLH | 1MP00074 |
7396 | 9969 | Search targets | |
| MYB | 1MP00216 |
7342 | 9832 | Search targets | |
| WRKY | 1MP00539 |
7338 | 9848 | Search targets | |
| ARF | 1MP00574 |
7302 | 9846 | Search targets | |
| WRKY | 1MP00464 |
7299 | 9864 | Search targets | |
| MIKC_MADS | 1MP00315 |
7291 | 9567 | Search targets | |
| WRKY | 1MP00525 |
7235 | 9838 | Search targets | |
| WRKY | 1MP00171 |
7182 | 9833 | Search targets | |
| WRKY | 1MP00506 |
7173 | 9818 | Search targets | |
| MIKC_MADS | 1MP00272 |
7172 | 9889 | Search targets | |
| bZIP | 1MP00184 |
7147 | 9840 | Search targets | |
| bZIP | 1MP00647 |
7133 | 9953 | Search targets | |
| C2H2 | 1MP00485 |
7130 | 8059 | Search targets | |
| MYB | 1MP00134 |
7078 | 8676 | Search targets | |
| ERF | 1MP00312 |
7006 | 8490 | Search targets | |
| MYB | 1MP00564 |
6984 | 9893 | Search targets | |
| G2-like | 1MP00022 |
6959 | 9720 | Search targets | |
| bZIP | 1MP00040 |
6920 | 9919 | Search targets | |
| ERF | 1MP00151 |
6907 | 9976 | Search targets | |
| WRKY | 1MP00455 |
6900 | 9792 | Search targets | |
| MYB | 1MP00482 |
6899 | 8940 | Search targets | |
| bZIP | 1MP00291 |
6894 | 9321 | Search targets | |
| SBP | 1MP00307 |
6893 | 9755 | Search targets | |
| bHLH | 1MP00195 |
6878 | 9832 | Search targets | |
| MYB | 1MP00388 |
6870 | 9774 | Search targets | |
| bZIP | 1MP00318 |
6849 | 9413 | Search targets | |
| SBP | 1MP00633 |
6833 | 8026 | Search targets | |
| bHLH | 1MP00308 |
6805 | 9826 | Search targets | |
| bHLH | 1MP00082 |
6784 | 9435 | Search targets | |
| MIKC_MADS | 1MP00080 |
6766 | 9850 | Search targets | |
| MYB | 1MP00028 |
6764 | 9024 | Search targets | |
| MYB | 1MP00191 |
6736 | 9690 | Search targets | |
| bHLH | 1MP00081 |
6729 | 9942 | Search targets | |
| MYB | 1MP00500 |
6697 | 9681 | Search targets | |
| ERF | 1MP00452 |
6671 | 7783 | Search targets | |
| WRKY | 1MP00531 |
6663 | 9784 | Search targets | |
| HD-ZIP | 1MP00200 |
6661 | 9930 | Search targets | |
| bHLH | 1MP00034 |
6653 | 9929 | Search targets | |
| bHLH | 1MP00660 |
6653 | 9929 | Search targets | |
| MYB | 1MP00055 |
6638 | 9685 | Search targets | |
| SBP | 1MP00634 |
6619 | 7771 | Search targets | |
| bHLH | 1MP00035 |
6618 | 9903 | Search targets | |
| MYB_related | 1MP00568 |
6611 | 9696 | Search targets | |
| bZIP | 1MP00039 |
6610 | 9936 | Search targets | |
| WRKY | 1MP00284 |
6552 | 9774 | Search targets | |
| WRKY | 1MP00422 |
6535 | 9791 | Search targets | |
| ARF | 1MP00153 |
6534 | 9706 | Search targets | |
| YABBY | 1MP00620 |
6504 | 9844 | Search targets | |
| TCP | 1MP00169 |
6498 | 7295 | Search targets | |
| G2-like | 1MP00252 |
6478 | 9780 | Search targets | |
| NAC | 1MP00108 |
6458 | 9810 | Search targets | |
| TCP | 1MP00062 |
6454 | 7249 | Search targets | |
| RAV | 1MP00024 |
6450 | 9853 | Search targets | |
| WRKY | 1MP00167 |
6439 | 9756 | Search targets | |
| C2H2 | 1MP00416 |
6433 | 9716 | Search targets | |
| C2H2 | 1MP00608 |
6398 | 9817 | Search targets | |
| ERF | 1MP00240 |
6368 | 9978 | Search targets | |
| MYB_related | 1MP00607 |
6362 | 9718 | Search targets | |
| Dof | 1MP00402 |
6278 | 9875 | Search targets | |
| bZIP | 1MP00409 |
6252 | 8429 | Search targets | |
| GRAS | 1MP00611 |
6232 | 9807 | Search targets | |
| bZIP | 1MP00648 |
6170 | 9939 | Search targets | |
| ERF | 1MP00120 |
6144 | 7514 | Search targets | |
| WRKY | 1MP00251 |
6140 | 9713 | Search targets | |
| MIKC_MADS | 1MP00077 |
6125 | 9815 | Search targets | |
| GATA | 1MP00130 |
6015 | 9821 | Search targets | |
| MIKC_MADS | 1MP00508 |
5979 | 7481 | Search targets | |
| WRKY | 1MP00260 |
5932 | 9706 | Search targets | |
| HD-ZIP | 1MP00013 |
5927 | 9712 | Search targets | |
| WRKY | 1MP00299 |
5919 | 9699 | Search targets |
Input: SmilChr03G004274; matched 1 motifs; threshold: 0.90
| TF ID | New Gene ID | Family | Protein | Motif | Consensus |
|---|---|---|---|---|---|
SMil_00001114-RA_Salv |
SmilChr03G004274 |
MIKC_MADS | XP_057799397.1 |
MP00080 |
CCAAAAAAGGAAAA |
9850 binding sites 6766 candidate target genes Page 1 / 136 Download TSV
| Target gene | Chr | Best binding site | Site strand | Upstream of target TSS | Binding score | Promoter hits | Gene interval | TF | Motif | Matched sequence |
|---|---|---|---|---|---|---|---|---|---|---|
SmilChr01G002346 |
Chr01 | NC_080387.1:40599143-40599156in promoter 3922-3935 bp |
- | 66 bp upstream of target TSS | 99.3/ 100 | 4 | 40593257-40599077(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAGAGGAAAA |
SmilChr01G003367 |
Chr01 | NC_080387.1:52409743-52409756in promoter 2016-2029 bp |
- | 1972 bp upstream of target TSS | 99.3/ 100 | 3 | 52403207-52407771(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAGAGGAAAA |
SmilChr02G001716 |
Chr02 | NC_080388.1:31604943-31604956in promoter 3781-3794 bp |
+ | 207 bp upstream of target TSS | 99.2/ 100 | 7 | 31598685-31604736(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr01G004482 |
Chr01 | NC_080387.1:62947752-62947765in promoter 2265-2278 bp |
- | 1723 bp upstream of target TSS | 99.2/ 100 | 6 | 62949488-62953834(+) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr01G004727 |
Chr01 | NC_080387.1:65453330-65453343in promoter 2519-2532 bp |
+ | 1469 bp upstream of target TSS | 99.2/ 100 | 5 | 65449517-65451861(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr03G000349 |
Chr03 | NC_080389.1:3923402-3923415in promoter 1376-1389 bp |
- | 2612 bp upstream of target TSS | 99.2/ 100 | 5 | 3919408-3920790(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr03G000350 |
Chr03 | NC_080389.1:3923402-3923415in promoter 674-687 bp |
- | 3314 bp upstream of target TSS | 99.2/ 100 | 5 | 3926729-3927735(+) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr04G001573 |
Chr04 | NC_080390.1:26127292-26127305in promoter 3766-3779 bp |
- | 222 bp upstream of target TSS | 99.2/ 100 | 4 | 26099315-26127070(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G005370 |
Chr01 | NC_080387.1:70914772-70914785in promoter 3322-3335 bp |
+ | 666 bp upstream of target TSS | 99.2/ 100 | 4 | 70915451-70926348(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G005467 |
Chr01 | NC_080387.1:71662142-71662155in promoter 3164-3177 bp |
+ | 824 bp upstream of target TSS | 99.2/ 100 | 4 | 71658518-71661318(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr01G005369 |
Chr01 | NC_080387.1:70914772-70914785in promoter 2749-2762 bp |
+ | 1239 bp upstream of target TSS | 99.2/ 100 | 4 | 70908005-70913533(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr04G001273 |
Chr04 | NC_080390.1:20252106-20252119in promoter 2656-2669 bp |
+ | 1332 bp upstream of target TSS | 99.2/ 100 | 4 | 20245489-20250774(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr01G002906 |
Chr01 | NC_080387.1:47760003-47760016in promoter 2066-2079 bp |
+ | 1922 bp upstream of target TSS | 99.2/ 100 | 4 | 47752984-47758081(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr02G004456 |
Chr02 | NC_080388.1:66973998-66974011in promoter 1939-1952 bp |
+ | 2049 bp upstream of target TSS | 99.2/ 100 | 4 | 66976060-66978911(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G004544 |
Chr01 | NC_080387.1:63586983-63586996in promoter 911-924 bp |
+ | 3077 bp upstream of target TSS | 99.2/ 100 | 4 | 63590073-63593410(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr03G000772 |
Chr03 | NC_080389.1:8815776-8815789in promoter 688-701 bp |
+ | 3300 bp upstream of target TSS | 99.2/ 100 | 4 | 8810690-8812476(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr01G004690 |
Chr01 | NC_080387.1:64957370-64957383in promoter 410-423 bp |
+ | 3578 bp upstream of target TSS | 99.2/ 100 | 4 | 64934331-64953792(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr03G003069 |
Chr03 | NC_080389.1:47655085-47655098in promoter 345-358 bp |
+ | 3643 bp upstream of target TSS | 99.2/ 100 | 4 | 47647448-47651442(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr01G001967 |
Chr01 | NC_080387.1:35021099-35021112in promoter 208-221 bp |
+ | 3780 bp upstream of target TSS | 99.2/ 100 | 4 | 35024892-35028614(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr03G002061 |
Chr03 | NC_080389.1:31400030-31400043in promoter 3808-3821 bp |
- | 180 bp upstream of target TSS | 99.2/ 100 | 3 | 31400223-31405967(+) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr02G005375 |
Chr02 | NC_080388.1:74427732-74427745in promoter 3791-3804 bp |
- | 197 bp upstream of target TSS | 99.2/ 100 | 3 | 74427942-74429920(+) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr02G000207 |
Chr02 | NC_080388.1:2733265-2733278in promoter 3720-3733 bp |
- | 268 bp upstream of target TSS | 99.2/ 100 | 3 | 2733546-2736218(+) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr02G002482 |
Chr02 | NC_080388.1:43211179-43211192in promoter 3650-3663 bp |
+ | 338 bp upstream of target TSS | 99.2/ 100 | 3 | 43211530-43214311(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G001558 |
Chr01 | NC_080387.1:29598735-29598748in promoter 3585-3598 bp |
- | 403 bp upstream of target TSS | 99.2/ 100 | 3 | 29596491-29598332(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G005206 |
Chr01 | NC_080387.1:69721293-69721306in promoter 3528-3541 bp |
+ | 460 bp upstream of target TSS | 99.2/ 100 | 3 | 69721766-69722389(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G001530 |
Chr01 | NC_080387.1:29293018-29293031in promoter 3343-3356 bp |
- | 645 bp upstream of target TSS | 99.2/ 100 | 3 | 29290857-29292373(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr03G003718 |
Chr03 | NC_080389.1:56197405-56197418in promoter 3337-3350 bp |
+ | 651 bp upstream of target TSS | 99.2/ 100 | 3 | 56198069-56199905(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G004959 |
Chr01 | NC_080387.1:67686557-67686570in promoter 2911-2924 bp |
- | 1077 bp upstream of target TSS | 99.2/ 100 | 3 | 67687647-67692378(+) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr04G000903 |
Chr04 | NC_080390.1:11763886-11763899in promoter 2821-2834 bp |
+ | 1167 bp upstream of target TSS | 99.2/ 100 | 3 | 11760419-11762719(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr03G001528 |
Chr03 | NC_080389.1:19044498-19044511in promoter 2446-2459 bp |
- | 1542 bp upstream of target TSS | 99.2/ 100 | 3 | 19040345-19042956(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr02G003567 |
Chr02 | NC_080388.1:56845024-56845037in promoter 2371-2384 bp |
- | 1617 bp upstream of target TSS | 99.2/ 100 | 3 | 56846654-56848096(+) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr01G001156 |
Chr01 | NC_080387.1:23508961-23508974in promoter 2301-2314 bp |
- | 1687 bp upstream of target TSS | 99.2/ 100 | 3 | 23504631-23507274(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr04G000963 |
Chr04 | NC_080390.1:12826630-12826643in promoter 2220-2233 bp |
- | 1768 bp upstream of target TSS | 99.2/ 100 | 3 | 12828411-12830917(+) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr03G004654 |
Chr03 | NC_080389.1:64054858-64054871in promoter 2201-2214 bp |
+ | 1787 bp upstream of target TSS | 99.2/ 100 | 3 | 64056658-64059498(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr02G003752 |
Chr02 | NC_080388.1:59155800-59155813in promoter 1572-1585 bp |
+ | 2416 bp upstream of target TSS | 99.2/ 100 | 3 | 59158229-59162643(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G003596 |
Chr01 | NC_080387.1:54516847-54516860in promoter 1500-1513 bp |
+ | 2488 bp upstream of target TSS | 99.2/ 100 | 3 | 54519348-54520526(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G005082 |
Chr01 | NC_080387.1:68697717-68697730in promoter 1424-1437 bp |
+ | 2564 bp upstream of target TSS | 99.2/ 100 | 3 | 68700294-68701229(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G005401 |
Chr01 | NC_080387.1:71257507-71257520in promoter 610-623 bp |
+ | 3378 bp upstream of target TSS | 99.2/ 100 | 3 | 71260898-71273264(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G002557 |
Chr01 | NC_080387.1:43703392-43703405in promoter 510-523 bp |
+ | 3478 bp upstream of target TSS | 99.2/ 100 | 3 | 43698739-43699914(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr03G004655 |
Chr03 | NC_080389.1:64054858-64054871in promoter 507-520 bp |
+ | 3481 bp upstream of target TSS | 99.2/ 100 | 3 | 64058352-64058957(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr03G000150 |
Chr03 | NC_080389.1:1639940-1639953in promoter 333-346 bp |
+ | 3655 bp upstream of target TSS | 99.2/ 100 | 3 | 1635193-1636285(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr02G003693 |
Chr02 | NC_080388.1:58381383-58381396in promoter 193-206 bp |
+ | 3795 bp upstream of target TSS | 99.2/ 100 | 3 | 58373232-58377588(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr04G001110 |
Chr04 | NC_080390.1:15937578-15937591in promoter 143-156 bp |
- | 3845 bp upstream of target TSS | 99.2/ 100 | 3 | 15929849-15933733(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr03G004153 |
Chr03 | NC_080389.1:60330335-60330348in promoter 3821-3834 bp |
+ | 167 bp upstream of target TSS | 99.2/ 100 | 2 | 60330515-60335182(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G005400 |
Chr01 | NC_080387.1:71257507-71257520in promoter 3736-3749 bp |
+ | 252 bp upstream of target TSS | 99.2/ 100 | 2 | 71257772-71259678(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G005752 |
Chr01 | NC_080387.1:73596112-73596125in promoter 3684-3697 bp |
+ | 304 bp upstream of target TSS | 99.2/ 100 | 2 | 73593282-73595808(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr02G001833 |
Chr02 | NC_080388.1:33354921-33354934in promoter 3677-3690 bp |
- | 311 bp upstream of target TSS | 99.2/ 100 | 2 | 33347717-33354610(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr02G005146 |
Chr02 | NC_080388.1:72864769-72864782in promoter 3496-3509 bp |
- | 492 bp upstream of target TSS | 99.2/ 100 | 2 | 72860905-72864277(-) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |
SmilChr01G005600 |
Chr01 | NC_080387.1:72594578-72594591in promoter 3461-3474 bp |
+ | 527 bp upstream of target TSS | 99.2/ 100 | 2 | 72593891-72594051(-) |
SMil_00001114-RA_Salv |
MP00080 |
CTTTCCTTTTTTGG |
SmilChr01G001951 |
Chr01 | NC_080387.1:34726784-34726797in promoter 3437-3450 bp |
+ | 551 bp upstream of target TSS | 99.2/ 100 | 2 | 34727348-34728983(+) |
SMil_00001114-RA_Salv |
MP00080 |
CCAAAAAAGGAAAG |