TF Target Search

Enter a Red Sage TF ID, standard Gene ID, LOC/GeneID, protein ID, motif ID, or TF family to query precomputed genome-wide promoter binding sites and target genes.
257motifs
38157precomputed promoters
1892224precomputed TF sites
257indexed TF/motifs

Candidate-target Evidence Boundary

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.

Available Transcription Factors

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.

Examples
100 / 257 TF entries Threshold 0.90 1892224 precomputed sites
TF ID Family Motifs Target genes Sites Actions
C2H2 1
MP00592
8519 9901 Search targets
C2H2 1
MP00592
8519 9901 Search targets
ARR-B 1
MP00010
8344 9778 Search targets
NAC 1
MP00059
8333 9940 Search targets
MYB 1
MP00296
8304 9873 Search targets
MYB 1
MP00114
8151 9897 Search targets
WRKY 1
MP00408
8149 9902 Search targets
Nin-like 1
MP00449
8096 9453 Search targets
WRKY 1
MP00209
8083 9910 Search targets
MYB 1
MP00627
8075 9835 Search targets
WRKY 1
MP00450
8044 9901 Search targets
ERF 1
MP00558
8044 9762 Search targets
MIKC_MADS 1
MP00096
8019 9914 Search targets
MYB 1
MP00476
7981 9904 Search targets
NAC 1
MP00221
7965 9903 Search targets
WRKY 1
MP00069
7882 9917 Search targets
MYB 1
MP00406
7839 9917 Search targets
TALE 1
MP00670
7758 9906 Search targets
SBP 1
MP00555
7648 9805 Search targets
ARF 1
MP00021
7629 9812 Search targets
MYB 1
MP00132
7583 9926 Search targets
MIKC_MADS 1
MP00609
7575 9941 Search targets
ERF 1
MP00529
7559 9247 Search targets
MYB 1
MP00510
7526 9799 Search targets
NAC 1
MP00058
7440 9855 Search targets
bZIP 1
MP00303
7416 9868 Search targets
MYB_related 1
MP00565
7412 9785 Search targets
ERF 1
MP00026
7408 9854 Search targets
WRKY 1
MP00071
7408 9764 Search targets
ARF 1
MP00033
7406 9827 Search targets
bHLH 1
MP00074
7396 9969 Search targets
MYB 1
MP00216
7342 9832 Search targets
WRKY 1
MP00539
7338 9848 Search targets
ARF 1
MP00574
7302 9846 Search targets
WRKY 1
MP00464
7299 9864 Search targets
MIKC_MADS 1
MP00315
7291 9567 Search targets
WRKY 1
MP00525
7235 9838 Search targets
WRKY 1
MP00171
7182 9833 Search targets
WRKY 1
MP00506
7173 9818 Search targets
MIKC_MADS 1
MP00272
7172 9889 Search targets
bZIP 1
MP00184
7147 9840 Search targets
bZIP 1
MP00647
7133 9953 Search targets
C2H2 1
MP00485
7130 8059 Search targets
MYB 1
MP00134
7078 8676 Search targets
ERF 1
MP00312
7006 8490 Search targets
MYB 1
MP00564
6984 9893 Search targets
G2-like 1
MP00022
6959 9720 Search targets
bZIP 1
MP00040
6920 9919 Search targets
ERF 1
MP00151
6907 9976 Search targets
WRKY 1
MP00455
6900 9792 Search targets
MYB 1
MP00482
6899 8940 Search targets
bZIP 1
MP00291
6894 9321 Search targets
SBP 1
MP00307
6893 9755 Search targets
bHLH 1
MP00195
6878 9832 Search targets
MYB 1
MP00388
6870 9774 Search targets
bZIP 1
MP00318
6849 9413 Search targets
SBP 1
MP00633
6833 8026 Search targets
bHLH 1
MP00308
6805 9826 Search targets
bHLH 1
MP00082
6784 9435 Search targets
MIKC_MADS 1
MP00080
6766 9850 Search targets
MYB 1
MP00028
6764 9024 Search targets
MYB 1
MP00191
6736 9690 Search targets
bHLH 1
MP00081
6729 9942 Search targets
MYB 1
MP00500
6697 9681 Search targets
ERF 1
MP00452
6671 7783 Search targets
WRKY 1
MP00531
6663 9784 Search targets
HD-ZIP 1
MP00200
6661 9930 Search targets
bHLH 1
MP00034
6653 9929 Search targets
bHLH 1
MP00660
6653 9929 Search targets
MYB 1
MP00055
6638 9685 Search targets
SBP 1
MP00634
6619 7771 Search targets
bHLH 1
MP00035
6618 9903 Search targets
MYB_related 1
MP00568
6611 9696 Search targets
bZIP 1
MP00039
6610 9936 Search targets
WRKY 1
MP00284
6552 9774 Search targets
WRKY 1
MP00422
6535 9791 Search targets
ARF 1
MP00153
6534 9706 Search targets
YABBY 1
MP00620
6504 9844 Search targets
TCP 1
MP00169
6498 7295 Search targets
G2-like 1
MP00252
6478 9780 Search targets
NAC 1
MP00108
6458 9810 Search targets
TCP 1
MP00062
6454 7249 Search targets
RAV 1
MP00024
6450 9853 Search targets
WRKY 1
MP00167
6439 9756 Search targets
C2H2 1
MP00416
6433 9716 Search targets
C2H2 1
MP00608
6398 9817 Search targets
ERF 1
MP00240
6368 9978 Search targets
MYB_related 1
MP00607
6362 9718 Search targets
Dof 1
MP00402
6278 9875 Search targets
bZIP 1
MP00409
6252 8429 Search targets
GRAS 1
MP00611
6232 9807 Search targets
bZIP 1
MP00648
6170 9939 Search targets
ERF 1
MP00120
6144 7514 Search targets
WRKY 1
MP00251
6140 9713 Search targets
MIKC_MADS 1
MP00077
6125 9815 Search targets
GATA 1
MP00130
6015 9821 Search targets
MIKC_MADS 1
MP00508
5979 7481 Search targets
WRKY 1
MP00260
5932 9706 Search targets
HD-ZIP 1
MP00013
5927 9712 Search targets
WRKY 1
MP00299
5919 9699 Search targets

Matched TF / motifs

Input: SmilChr03G004274; matched 1 motifs; threshold: 0.90

TF IDNew Gene IDFamilyProteinMotifConsensus
SMil_00001114-RA_Salv SmilChr03G004274 MIKC_MADS XP_057799397.1 MP00080 CCAAAAAAGGAAAA

Predicted Target Genes

9850 binding sites 6766 candidate target genes Page 1 / 136 Download TSV

1 Next Up to 50 target genes per page
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