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: SmilChr04G002953; matched 1 motifs; threshold: 0.90

TF IDNew Gene IDFamilyProteinMotifConsensus
SMil_00011004-RA_Salv SmilChr04G002953 ARF XP_057809314.1 MP00033 TTTGTCGGC

Predicted Target Genes

9827 binding sites 7406 candidate target genes Page 2 / 149 Download TSV

Previous 2 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
SmilChr02G001947 Chr02 NC_080388.1:35090333-35090341in promoter 2342-2350 bp - 1651 bp upstream of target TSS 100.0/ 100 1 35086837-35088682(-) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr01G002464 Chr01 NC_080387.1:42340518-42340526in promoter 2215-2223 bp + 1778 bp upstream of target TSS 100.0/ 100 1 42337723-42338740(-) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr01G000144 Chr01 NC_080387.1:2434732-2434740in promoter 2202-2210 bp - 1791 bp upstream of target TSS 100.0/ 100 1 2432032-2432941(-) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr01G001372 Chr01 NC_080387.1:27055789-27055797in promoter 2057-2065 bp - 1936 bp upstream of target TSS 100.0/ 100 1 27057733-27059408(+) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr04G002579 Chr04 NC_080390.1:41155437-41155445in promoter 1993-2001 bp - 2000 bp upstream of target TSS 100.0/ 100 1 41157445-41162504(+) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr04G001849 Chr04 NC_080390.1:30150398-30150406in promoter 1938-1946 bp + 2055 bp upstream of target TSS 100.0/ 100 1 30152461-30154423(+) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr02G002341 Chr02 NC_080388.1:41131271-41131279in promoter 1830-1838 bp + 2163 bp upstream of target TSS 100.0/ 100 1 41133442-41134837(+) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr02G002753 Chr02 NC_080388.1:47559241-47559249in promoter 1612-1620 bp - 2381 bp upstream of target TSS 100.0/ 100 1 47556057-47556860(-) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr02G002755 Chr02 NC_080388.1:47588079-47588087in promoter 1574-1582 bp + 2419 bp upstream of target TSS 100.0/ 100 1 47590506-47591247(+) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr02G002752 Chr02 NC_080388.1:47547676-47547684in promoter 1334-1342 bp + 2659 bp upstream of target TSS 100.0/ 100 1 47542130-47545017(-) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr01G001373 Chr01 NC_080387.1:27055789-27055797in promoter 1297-1305 bp - 2696 bp upstream of target TSS 100.0/ 100 1 27058493-27061257(+) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr02G003436 Chr02 NC_080388.1:55599471-55599479in promoter 1137-1145 bp - 2856 bp upstream of target TSS 100.0/ 100 1 55589245-55596615(-) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr02G000397 Chr02 NC_080388.1:4912339-4912347in promoter 976-984 bp + 3017 bp upstream of target TSS 100.0/ 100 1 4915364-4916889(+) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr01G001669 Chr01 NC_080387.1:30782694-30782702in promoter 872-880 bp - 3121 bp upstream of target TSS 100.0/ 100 1 30785823-30786764(+) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr03G002261 Chr03 NC_080389.1:35622345-35622353in promoter 781-789 bp - 3212 bp upstream of target TSS 100.0/ 100 1 35615352-35619133(-) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr02G000143 Chr02 NC_080388.1:1918562-1918570in promoter 438-446 bp - 3555 bp upstream of target TSS 100.0/ 100 1 1922125-1924139(+) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr03G000119 Chr03 NC_080389.1:1295297-1295305in promoter 413-421 bp - 3580 bp upstream of target TSS 100.0/ 100 1 1298885-1300507(+) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr04G001457 Chr04 NC_080390.1:23982676-23982684in promoter 371-379 bp + 3622 bp upstream of target TSS 100.0/ 100 1 23974953-23979054(-) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr02G000931 Chr02 NC_080388.1:16231281-16231289in promoter 311-319 bp + 3682 bp upstream of target TSS 100.0/ 100 1 16234971-16238879(+) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr01G002594 Chr01 NC_080387.1:44071049-44071057in promoter 258-266 bp + 3735 bp upstream of target TSS 100.0/ 100 1 44074792-44079642(+) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr02G002138 Chr02 NC_080388.1:38473987-38473995in promoter 232-240 bp + 3761 bp upstream of target TSS 100.0/ 100 1 38477756-38480250(+) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr02G004423 Chr02 NC_080388.1:66571686-66571694in promoter 207-215 bp - 3786 bp upstream of target TSS 100.0/ 100 1 66565488-66567900(-) SMil_00011004-RA_Salv MP00033 CCTGTCGGC
SmilChr01G000324 Chr01 NC_080387.1:6405497-6405505in promoter 200-208 bp - 3793 bp upstream of target TSS 100.0/ 100 1 6409298-6410059(+) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr04G001525 Chr04 NC_080390.1:25176149-25176157in promoter 146-154 bp + 3847 bp upstream of target TSS 100.0/ 100 1 25171119-25172302(-) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr02G000121 Chr02 NC_080388.1:1639346-1639354in promoter 97-105 bp + 3896 bp upstream of target TSS 100.0/ 100 1 1631201-1635450(-) SMil_00011004-RA_Salv MP00033 GCCGACAGG
SmilChr04G000437 Chr04 NC_080390.1:4628007-4628015in promoter 3974-3982 bp + 19 bp upstream of target TSS 99.7/ 100 5 4628034-4669251(+) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr03G003228 Chr03 NC_080389.1:50003710-50003718in promoter 942-950 bp - 3051 bp upstream of target TSS 99.7/ 100 5 49999920-50000659(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr03G003229 Chr03 NC_080389.1:50013225-50013233in promoter 927-935 bp - 3066 bp upstream of target TSS 99.7/ 100 5 50008831-50010159(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr02G002016 Chr02 NC_080388.1:36315489-36315497in promoter 3044-3052 bp - 949 bp upstream of target TSS 99.7/ 100 4 36313282-36314540(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr04G000438 Chr04 NC_080390.1:4628007-4628015in promoter 1449-1457 bp + 2544 bp upstream of target TSS 99.7/ 100 4 4630559-4635547(+) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr01G001696 Chr01 NC_080387.1:31226051-31226059in promoter 1076-1084 bp - 2917 bp upstream of target TSS 99.7/ 100 4 31228976-31230418(+) SMil_00011004-RA_Salv MP00033 GCCGACAGC
SmilChr02G005382 Chr02 NC_080388.1:74492401-74492409in promoter 820-828 bp - 3173 bp upstream of target TSS 99.7/ 100 4 74486327-74489228(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr02G005178 Chr02 NC_080388.1:73074892-73074900in promoter 589-597 bp - 3404 bp upstream of target TSS 99.7/ 100 4 73078304-73085938(+) SMil_00011004-RA_Salv MP00033 GCCGACAGC
SmilChr02G000264 Chr02 NC_080388.1:3422380-3422388in promoter 3755-3763 bp - 238 bp upstream of target TSS 99.7/ 100 3 3422626-3423363(+) SMil_00011004-RA_Salv MP00033 GCCGACAGC
SmilChr04G002595 Chr04 NC_080390.1:41380324-41380332in promoter 3627-3635 bp - 366 bp upstream of target TSS 99.7/ 100 3 41378180-41379958(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr01G004714 Chr01 NC_080387.1:65324144-65324152in promoter 3437-3445 bp + 556 bp upstream of target TSS 99.7/ 100 3 65324708-65326861(+) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr01G001121 Chr01 NC_080387.1:22833160-22833168in promoter 3157-3165 bp - 836 bp upstream of target TSS 99.7/ 100 3 22831740-22832324(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr02G000219 Chr02 NC_080388.1:2852317-2852325in promoter 3090-3098 bp + 903 bp upstream of target TSS 99.7/ 100 3 2853228-2855703(+) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr03G002554 Chr03 NC_080389.1:40721233-40721241in promoter 3068-3076 bp - 925 bp upstream of target TSS 99.7/ 100 3 40717137-40720308(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr02G003836 Chr02 NC_080388.1:60040924-60040932in promoter 2771-2779 bp + 1222 bp upstream of target TSS 99.7/ 100 3 60042154-60043220(+) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr04G000492 Chr04 NC_080390.1:5367088-5367096in promoter 2606-2614 bp - 1387 bp upstream of target TSS 99.7/ 100 3 5364503-5365701(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr02G000356 Chr02 NC_080388.1:4592778-4592786in promoter 2151-2159 bp - 1842 bp upstream of target TSS 99.7/ 100 3 4594628-4601151(+) SMil_00011004-RA_Salv MP00033 GCCGACAGC
SmilChr04G001956 Chr04 NC_080390.1:31750710-31750718in promoter 1944-1952 bp - 2049 bp upstream of target TSS 99.7/ 100 3 31744718-31748661(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr02G002555 Chr02 NC_080388.1:44465205-44465213in promoter 1926-1934 bp - 2067 bp upstream of target TSS 99.7/ 100 3 44461832-44463138(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr01G001048 Chr01 NC_080387.1:21770339-21770347in promoter 1818-1826 bp + 2175 bp upstream of target TSS 99.7/ 100 3 21772522-21840439(+) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr02G001617 Chr02 NC_080388.1:30119889-30119897in promoter 1750-1758 bp - 2243 bp upstream of target TSS 99.7/ 100 3 30116256-30117646(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr04G000436 Chr04 NC_080390.1:4625129-4625137in promoter 1435-1443 bp + 2558 bp upstream of target TSS 99.7/ 100 3 4619364-4622571(-) SMil_00011004-RA_Salv MP00033 GCCGACAGC
SmilChr02G001035 Chr02 NC_080388.1:18398015-18398023in promoter 1414-1422 bp + 2579 bp upstream of target TSS 99.7/ 100 3 18393809-18395436(-) SMil_00011004-RA_Salv MP00033 GCCGACAGC
SmilChr01G001502 Chr01 NC_080387.1:28867637-28867645in promoter 1399-1407 bp - 2594 bp upstream of target TSS 99.7/ 100 3 28859946-28865043(-) SMil_00011004-RA_Salv MP00033 GCTGTCGGC
SmilChr03G000664 Chr03 NC_080389.1:7437583-7437591in promoter 1034-1042 bp - 2959 bp upstream of target TSS 99.7/ 100 3 7440550-7442221(+) SMil_00011004-RA_Salv MP00033 GCCGACAGC