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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
SmilChr04G003117 XP_057809539.1
C2H2 1
MP00592
 8519 9901 Search targets
SmilChr04G003114 XP_057809538.1
C2H2 1
MP00592
 8519 9901 Search targets
SmilChr01G005298 XP_057788621.1
ARR-B 1
MP00010
 8344 9778 Search targets
SmilChr03G003924 XP_057798851.1
NAC 1
MP00059
 8333 9940 Search targets
SmilChr01G005344 XP_057788686.1
MYB 1
MP00296
 8304 9873 Search targets
SmilChr08G004408 XP_057780613.1
MYB 1
MP00114
 8151 9897 Search targets
SmilChr04G001094 XP_057804404.1
WRKY 1
MP00408
 8149 9902 Search targets
SmilChr07G003597 XP_057773587.1
Nin-like 1
MP00449
 8096 9453 Search targets
SmilChr02G005433 XP_057792682.1
WRKY 1
MP00209
 8083 9910 Search targets
SmilChr04G004136 XP_057806072.1
MYB 1
MP00627
 8075 9835 Search targets
SmilChr01G003955 XP_057779712.1
WRKY 1
MP00450
 8044 9901 Search targets
SmilChr03G003685 XP_057798538.1
ERF 1
MP00558
 8044 9762 Search targets
SmilChr07G002937 XP_057777490.1
MIKC_MADS 1
MP00096
 8019 9914 Search targets
SmilChr02G003833 XP_057794421.1
MYB 1
MP00476
 7981 9904 Search targets
SmilChr07G002803 XP_057777238.1
NAC 1
MP00221
 7965 9903 Search targets
SmilChr05G002364 XP_057809766.1
WRKY 1
MP00069
 7882 9917 Search targets
SmilChr08G003267 XP_057779249.1
MYB 1
MP00406
 7839 9917 Search targets
SmilChr02G005012 XP_057792191.1
TALE 1
MP00670
 7758 9906 Search targets
SmilChr07G001978 XP_057776996.1
SBP 1
MP00555
 7648 9805 Search targets
SmilChr05G000741 XP_057764423.1
ARF 1
MP00021
 7629 9812 Search targets
SmilChr01G004579 XP_057787263.1
MYB 1
MP00132
 7583 9926 Search targets
SmilChr05G000593 XP_057764223.1
MIKC_MADS 1
MP00609
 7575 9941 Search targets
SmilChr03G004518 XP_057799834.1
ERF 1
MP00529
 7559 9247 Search targets
SmilChr06G001829 XP_057766988.1
MYB 1
MP00510
 7526 9799 Search targets
SmilChr05G000830 XP_057764550.1
NAC 1
MP00058
 7440 9855 Search targets
SmilChr08G002543 XP_057778423.1
bZIP 1
MP00303
 7416 9868 Search targets
SmilChr01G002743 XP_057765725.1
MYB_related 1
MP00565
 7412 9785 Search targets
SmilChr04G002704 XP_057807081.1
ERF 1
MP00026
 7408 9854 Search targets
SmilChr05G001395 XP_057765344.1
WRKY 1
MP00071
 7408 9764 Search targets
SmilChr04G002953 XP_057809314.1
ARF 1
MP00033
 7406 9827 Search targets
SmilChr01G004199 XP_057782208.1
bHLH 1
MP00074
 7396 9969 Search targets
SmilChr05G004009 XP_057810662.1
MYB 1
MP00216
 7342 9832 Search targets
SmilChr03G001606 XP_057802772.1
WRKY 1
MP00539
 7338 9848 Search targets
SmilChr02G004600 XP_057791481.1
ARF 1
MP00574
 7302 9846 Search targets
SmilChr03G004179 XP_057799230.1
WRKY 1
MP00464
 7299 9864 Search targets
SmilChr04G003805 XP_057805691.1
MIKC_MADS 1
MP00315
 7291 9567 Search targets
SmilChr03G003761 XP_057798625.1
WRKY 1
MP00525
 7235 9838 Search targets
SmilChr01G001885 XP_057806790.1
WRKY 1
MP00171
 7182 9833 Search targets
SmilChr05G004392 XP_057811204.1
WRKY 1
MP00506
 7173 9818 Search targets
SmilChr04G002757 XP_057807158.1
MIKC_MADS 1
MP00272
 7172 9889 Search targets
SmilChr01G003404 XP_057773670.1
bZIP 1
MP00184
 7147 9840 Search targets
SmilChr03G002335 XP_057801256.1
bZIP 1
MP00647
 7133 9953 Search targets
SmilChr07G002075 XP_057773918.1
C2H2 1
MP00485
 7130 8059 Search targets
SmilChr04G000162 XP_057807467.1
MYB 1
MP00134
 7078 8676 Search targets
SmilChr04G000040 XP_057808382.1
ERF 1
MP00312
 7006 8490 Search targets
SmilChr08G001896 XP_057783815.1
MYB 1
MP00564
 6984 9893 Search targets
SmilChr02G005217 XP_057792502.1
G2-like 1
MP00022
 6959 9720 Search targets
SmilChr05G000260 XP_057763683.1
bZIP 1
MP00040
 6920 9919 Search targets
SmilChr01G002885 XP_057767601.1
ERF 1
MP00151
 6907 9976 Search targets
SmilChr05G001518 XP_057765511.1
WRKY 1
MP00455
 6900 9792 Search targets
SmilChr03G002503 XP_057801356.1
MYB 1
MP00482
 6899 8940 Search targets
SmilChr03G001252 XP_057802461.1
bZIP 1
MP00291
 6894 9321 Search targets
SmilChr06G001365 XP_057768799.1
SBP 1
MP00307
 6893 9755 Search targets
SmilChr03G003439 XP_057798243.1
bHLH 1
MP00195
 6878 9832 Search targets
SmilChr06G001111 XP_057768512.1
MYB 1
MP00388
 6870 9774 Search targets
SmilChr02G000949 XP_057795176.1
bZIP 1
MP00318
 6849 9413 Search targets
SmilChr01G000025 XP_057790305.1
SBP 1
MP00633
 6833 8026 Search targets
SmilChr01G004313 XP_057783598.1
bHLH 1
MP00308
 6805 9826 Search targets
SmilChr02G005502 XP_057792768.1
bHLH 1
MP00082
 6784 9435 Search targets
SmilChr03G004274 XP_057799397.1
MIKC_MADS 1
MP00080
 6766 9850 Search targets
SmilChr02G003688 XP_057794248.1
MYB 1
MP00028
 6764 9024 Search targets
SmilChr04G003367 XP_057804957.1
MYB 1
MP00191
 6736 9690 Search targets
SmilChr04G000157 XP_057807462.1
bHLH 1
MP00081
 6729 9942 Search targets
SmilChr07G002147 XP_057774045.1
MYB 1
MP00500
 6697 9681 Search targets
SmilChr05G002277 XP_057809665.1
ERF 1
MP00452
 6671 7783 Search targets
SmilChr07G004480 XP_057776222.1
WRKY 1
MP00531
 6663 9784 Search targets
SmilChr02G004447 XP_057797242.1
HD-ZIP 1
MP00200
 6661 9930 Search targets
SmilChr04G000070 XP_057807324.1
bHLH 1
MP00034
 6653 9929 Search targets
SmilChr01G002039 XP_057808459.1
bHLH 1
MP00660
 6653 9929 Search targets
SmilChr01G005851 XP_057789306.1
MYB 1
MP00055
 6638 9685 Search targets
SmilChr02G005238 XP_057792594.1
SBP 1
MP00634
 6619 7771 Search targets
SmilChr06G002048 XP_057770293.1
bHLH 1
MP00035
 6618 9903 Search targets
SmilChr07G000836 XP_057772437.1
MYB_related 1
MP00568
 6611 9696 Search targets
SmilChr04G003119 XP_057809542.1
bZIP 1
MP00039
 6610 9936 Search targets
SmilChr01G004114 XP_057781125.1
WRKY 1
MP00284
 6552 9774 Search targets
SmilChr08G004246 XP_057780410.1
WRKY 1
MP00422
 6535 9791 Search targets
SmilChr05G001980 XP_057766076.1
ARF 1
MP00153
 6534 9706 Search targets
SmilChr04G000094 XP_057807365.1
YABBY 1
MP00620
 6504 9844 Search targets
SmilChr02G002534 XP_057797741.1
TCP 1
MP00169
 6498 7295 Search targets
SmilChr05G001269 XP_057765199.1
G2-like 1
MP00252
 6478 9780 Search targets
SmilChr07G003441 XP_057773618.1
NAC 1
MP00108
 6458 9810 Search targets
SmilChr02G001791 XP_057795933.1
TCP 1
MP00062
 6454 7249 Search targets
SmilChr05G003285 XP_057810127.1
RAV 1
MP00024
 6450 9853 Search targets
SmilChr05G000619 XP_057764205.1
WRKY 1
MP00167
 6439 9756 Search targets
SmilChr04G003745 XP_057809144.1
C2H2 1
MP00416
 6433 9716 Search targets
SmilChr02G004607 XP_057791470.1
C2H2 1
MP00608
 6398 9817 Search targets
SmilChr02G003399 XP_057793859.1
ERF 1
MP00240
 6368 9978 Search targets
SmilChr01G004920 XP_057788125.1
MYB_related 1
MP00607
 6362 9718 Search targets
SmilChr06G001059 XP_057768449.1
Dof 1
MP00402
 6278 9875 Search targets
SmilChr01G004552 XP_057786668.1
bZIP 1
MP00409
 6252 8429 Search targets
SmilChr01G006187 XP_057798078.1
GRAS 1
MP00611
 6232 9807 Search targets
SmilChr01G001516 XP_057803325.1
bZIP 1
MP00648
 6170 9939 Search targets
SmilChr04G003955 XP_057805828.1
ERF 1
MP00120
 6144 7514 Search targets
SmilChr01G004708 XP_057787833.1
WRKY 1
MP00251
 6140 9713 Search targets
SmilChr05G001961 XP_057766054.1
MIKC_MADS 1
MP00077
 6125 9815 Search targets
SmilChr08G000478 XP_057781809.1
GATA 1
MP00130
 6015 9821 Search targets
SmilChr01G000943 XP_057790035.1
MIKC_MADS 1
MP00508
 5979 7481 Search targets
SmilChr05G004106 XP_057810779.1
WRKY 1
MP00260
 5932 9706 Search targets
SmilChr04G003973 XP_057805857.1
HD-ZIP 1
MP00013
 5927 9712 Search targets
SmilChr03G002207 XP_057801109.1
WRKY 1
MP00299
 5919 9699 Search targets

Matched TF / motifs

Input: SmilChr06G002048; matched 1 motifs; threshold: 0.90

TF IDNew Gene IDFamilyProteinMotifConsensus
SMil_00024366-RA_Salv SmilChr06G002048 bHLH XP_057770293.1 MP00035 CCCACGTGC

Predicted Target Genes

9903 binding sites 6618 candidate target genes Page 2 / 133 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
SmilChr01G005974 Chr01 NC_080387.1:75401281-75401289in promoter 1575-1583 bp - 2418 bp upstream of target TSS 100.0/ 100 2 75403707-75413345(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr01G003769 Chr01 NC_080387.1:56054895-56054903in promoter 1466-1474 bp - 2527 bp upstream of target TSS 100.0/ 100 2 56050375-56052368(-) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr03G002117 Chr03 NC_080389.1:32920464-32920472in promoter 1405-1413 bp + 2588 bp upstream of target TSS 100.0/ 100 2 32916940-32917876(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr04G001887 Chr04 NC_080390.1:30813415-30813423in promoter 1319-1327 bp - 2674 bp upstream of target TSS 100.0/ 100 2 30816097-30817013(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr02G003449 Chr02 NC_080388.1:55727146-55727154in promoter 1125-1133 bp + 2868 bp upstream of target TSS 100.0/ 100 2 55730022-55732077(+) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr04G001667 Chr04 NC_080390.1:27635303-27635311in promoter 989-997 bp - 3004 bp upstream of target TSS 100.0/ 100 2 27638315-27644091(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr01G005810 Chr01 NC_080387.1:74127119-74127127in promoter 787-795 bp + 3206 bp upstream of target TSS 100.0/ 100 2 74123288-74123913(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr04G000633 Chr04 NC_080390.1:7205329-7205337in promoter 787-795 bp - 3206 bp upstream of target TSS 100.0/ 100 2 7200782-7202123(-) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr04G000817 Chr04 NC_080390.1:10272836-10272844in promoter 667-675 bp - 3326 bp upstream of target TSS 100.0/ 100 2 10266658-10269510(-) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr04G000774 Chr04 NC_080390.1:9499870-9499878in promoter 624-632 bp - 3369 bp upstream of target TSS 100.0/ 100 2 9494444-9496501(-) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr04G002336 Chr04 NC_080390.1:37691182-37691190in promoter 610-618 bp - 3383 bp upstream of target TSS 100.0/ 100 2 37694573-37696627(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr02G005334 Chr02 NC_080388.1:74174948-74174956in promoter 606-614 bp + 3387 bp upstream of target TSS 100.0/ 100 2 74162934-74171561(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr04G000481 Chr04 NC_080390.1:5187970-5187978in promoter 363-371 bp + 3630 bp upstream of target TSS 100.0/ 100 2 5191608-5193259(+) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr03G004015 Chr03 NC_080389.1:59141970-59141978in promoter 3903-3911 bp - 90 bp upstream of target TSS 100.0/ 100 1 59138505-59141880(-) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr01G000987 Chr01 NC_080387.1:20874224-20874232in promoter 3895-3903 bp + 98 bp upstream of target TSS 100.0/ 100 1 20874330-20876202(+) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr04G003062 Chr04 NC_080390.1:47181446-47181454in promoter 3844-3852 bp - 149 bp upstream of target TSS 100.0/ 100 1 47181603-47182541(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr03G000218 Chr03 NC_080389.1:2531469-2531477in promoter 3838-3846 bp + 155 bp upstream of target TSS 100.0/ 100 1 2530498-2531314(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr03G001497 Chr03 NC_080389.1:18280422-18280430in promoter 3793-3801 bp + 200 bp upstream of target TSS 100.0/ 100 1 18280630-18288688(+) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr03G001713 Chr03 NC_080389.1:22905360-22905368in promoter 3678-3686 bp - 315 bp upstream of target TSS 100.0/ 100 1 22905683-22908207(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr04G001163 Chr04 NC_080390.1:17293288-17293296in promoter 3678-3686 bp + 315 bp upstream of target TSS 100.0/ 100 1 17290385-17292973(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr02G001662 Chr02 NC_080388.1:30848747-30848755in promoter 3662-3670 bp - 331 bp upstream of target TSS 100.0/ 100 1 30849086-30851629(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr02G001664 Chr02 NC_080388.1:30858469-30858477in promoter 3650-3658 bp - 343 bp upstream of target TSS 100.0/ 100 1 30858820-30861350(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr02G002712 Chr02 NC_080388.1:46967452-46967460in promoter 3642-3650 bp - 351 bp upstream of target TSS 100.0/ 100 1 46967811-46970940(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr01G001115 Chr01 NC_080387.1:22797289-22797297in promoter 3638-3646 bp + 355 bp upstream of target TSS 100.0/ 100 1 22794412-22796934(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr04G003070 Chr04 NC_080390.1:47250118-47250126in promoter 3638-3646 bp + 355 bp upstream of target TSS 100.0/ 100 1 47247360-47249763(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr04G002318 Chr04 NC_080390.1:37483886-37483894in promoter 3632-3640 bp + 361 bp upstream of target TSS 100.0/ 100 1 37481009-37483525(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr01G000356 Chr01 NC_080387.1:7385280-7385288in promoter 3630-3638 bp + 363 bp upstream of target TSS 100.0/ 100 1 7382262-7384917(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr04G001269 Chr04 NC_080390.1:20188212-20188220in promoter 3627-3635 bp + 366 bp upstream of target TSS 100.0/ 100 1 20185327-20187846(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr04G001200 Chr04 NC_080390.1:18340295-18340303in promoter 3609-3617 bp - 384 bp upstream of target TSS 100.0/ 100 1 18340687-18343167(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr04G001199 Chr04 NC_080390.1:18330611-18330619in promoter 3607-3615 bp - 386 bp upstream of target TSS 100.0/ 100 1 18331005-18333492(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr04G001164 Chr04 NC_080390.1:17303002-17303010in promoter 3581-3589 bp + 412 bp upstream of target TSS 100.0/ 100 1 17300097-17302590(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr02G001259 Chr02 NC_080388.1:23092582-23092590in promoter 3575-3583 bp + 418 bp upstream of target TSS 100.0/ 100 1 23089378-23092164(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr01G000388 Chr01 NC_080387.1:8001797-8001805in promoter 3513-3521 bp + 480 bp upstream of target TSS 100.0/ 100 1 7998958-8001317(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr03G002975 Chr03 NC_080389.1:46565114-46565122in promoter 3489-3497 bp + 504 bp upstream of target TSS 100.0/ 100 1 46561296-46564610(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr03G004423 Chr03 NC_080389.1:62397206-62397214in promoter 3395-3403 bp + 598 bp upstream of target TSS 100.0/ 100 1 62394783-62396608(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr02G001257 Chr02 NC_080388.1:23077934-23077942in promoter 3369-3377 bp + 624 bp upstream of target TSS 100.0/ 100 1 23074913-23077310(-) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr03G000486 Chr03 NC_080389.1:5188387-5188395in promoter 3366-3374 bp - 627 bp upstream of target TSS 100.0/ 100 1 5180191-5187760(-) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr01G002202 Chr01 NC_080387.1:38323137-38323145in promoter 3256-3264 bp + 737 bp upstream of target TSS 100.0/ 100 1 38323882-38326237(+) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr04G000631 Chr04 NC_080390.1:7189465-7189473in promoter 3256-3264 bp - 737 bp upstream of target TSS 100.0/ 100 1 7190210-7193404(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr02G004629 Chr02 NC_080388.1:68770864-68770872in promoter 3122-3130 bp + 871 bp upstream of target TSS 100.0/ 100 1 68771743-68772625(+) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr01G005194 Chr01 NC_080387.1:69632830-69632838in promoter 3115-3123 bp - 878 bp upstream of target TSS 100.0/ 100 1 69627145-69631952(-) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr04G002341 Chr04 NC_080390.1:37761822-37761830in promoter 2762-2770 bp - 1231 bp upstream of target TSS 100.0/ 100 1 37763061-37768442(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr01G000498 Chr01 NC_080387.1:10138781-10138789in promoter 2761-2769 bp + 1232 bp upstream of target TSS 100.0/ 100 1 10140021-10143058(+) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr03G004214 Chr03 NC_080389.1:60727978-60727986in promoter 2761-2769 bp - 1232 bp upstream of target TSS 100.0/ 100 1 60723482-60726746(-) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr03G002119 Chr03 NC_080389.1:32937823-32937831in promoter 2691-2699 bp - 1302 bp upstream of target TSS 100.0/ 100 1 32933148-32936521(-) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr02G003417 Chr02 NC_080388.1:55401400-55401408in promoter 2604-2612 bp + 1389 bp upstream of target TSS 100.0/ 100 1 55402797-55406595(+) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr03G000981 Chr03 NC_080389.1:11082287-11082295in promoter 2601-2609 bp + 1392 bp upstream of target TSS 100.0/ 100 1 11083687-11088021(+) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr03G000219 Chr03 NC_080389.1:2531469-2531477in promoter 2582-2590 bp + 1411 bp upstream of target TSS 100.0/ 100 1 2532888-2534832(+) SMil_00024366-RA_Salv MP00035 CCCACGTGC
SmilChr02G001648 Chr02 NC_080388.1:30576467-30576475in promoter 2499-2507 bp - 1494 bp upstream of target TSS 100.0/ 100 1 30577969-30585793(+) SMil_00024366-RA_Salv MP00035 GCACGTGGG
SmilChr03G001266 Chr03 NC_080389.1:14675545-14675553in promoter 2475-2483 bp - 1518 bp upstream of target TSS 100.0/ 100 1 14668002-14674027(-) SMil_00024366-RA_Salv MP00035 CCCACGTGC