• All motifs sorted by activity significance
• All samples sorted alphabetically

• Activities table
• Activity deltas table
• Regulatory interactions
• Motifs sorted by significance (text)

ISMARA results for GNF SymAtlas, mouse, averaged across 2 replicates (Lattin, 2008)

ISMARA - Integrated System for Motif Actitivity Response Analysis is a free online tool that recognizes most important transcription factors that are changing their activity in a set of samples.

All motifs sorted by activity significance

Motif name	Z-value	Associated genes	Profile	Logo
IRF1,2,7.p3	9.831	Irf1 (Irf-1) Irf2 (Irf-2) Irf7
E2F1..5.p2	8.685	E2f4 E2f5 (E2F-5) E2f2 E2f1 (E2F-1) E2f3 (E2F3b, E2f3a)
RFX1..5_RFXANK_RFXAP.p2	7.803	Rfx1 Rfxap Rfx5 Rfxank (Tvl1) Rfx4 Rfx3 (MRFX3) Rfx2
REST.p3	7.570	Rest (NRSF)
SPIB.p2	7.147	Spib (Spi-B)
NRF1.p2	6.605	Nrf1 (D6Ertd415e)
HNF1A.p2	6.257	Hnf1a (hepatocyte nuclear factor 1, HNF1, Hnf-1, Hnf1alpha, HNF1-alpha, LFB1, Tcf1, HNF1[a])
GATA1..3.p2	6.107	Gata1 (Gata-1, Gf-1) Gata2 (Gata-2) Gata3 (Gata-3)
TEAD1.p2	6.042	Tead1 (Gtrgeo5, TEAD-1, TEF-1, mTEF-1, Tcf13) Tead2 (Etdf, TEF-4, TEAD-2) Tead3 (TEAD-3, Tcf13r2, TEF-5, DTEF-1, ETFR-1) Tead4 (ETFR-2a, TEF-3, Tef3, TEAD-4, Etfr2, Tefr, Tcf13r1, Tefr1a)
SPI1.p2	6.014	Sfpi1 (Sfpi-1, PU.1, Spi-1, Tcfpu1, Dis-1, Tfpu.1)
NFKB1_REL_RELA.p2	5.926	Rela (p65 NF kappaB, p65) Rel (c-Rel) Nfkb1 (nuclear factor kappaB p50, NF-kappaB p50, p50, NF-kappaB, p50/p105, p50 subunit of NF kappaB, NF kappaB1)
MEF2{A,B,C,D}.p2	5.907	Mef2a Mef2c Mef2d Mef2b
HOX{A6,A7,B6,B7}.p2	5.556	Hoxb6 (Hox-2.2) Hoxa7 (Hox-1.1) Hoxb7 (Hox-2.3) Hoxa6 (Hox-1.2)
ELK1,4_GABP{A,B1}.p3	5.498	Gabpa (GABPalpha) Gabpb1 (NRF2B2, E4TF1-47, BABPB2, E4TF1, NRF2B1, E4Tf1B, GABPB1-1, GABPB1-2, E4TF1-53) Elk4 (Sap1) Elk1 (Elk-1)
YY1.p2	5.429	Yy1 (Yin Yang 1, delta transcription factor, UCRBP transcription factor, NF-E1)
MYB.p2	5.407	Myb (c-myb)
ZNF143.p2	5.137	Zfp143 (KRAB14, Zfp80-rs1, Zfp79, Staf, D7Ertd805e, pHZ-1)
TBP.p2	5.021	Tbp (Gtf2d)
XBP1.p3	5.003	Xbp1 (D11Ertd39e, TREB5, TREB-5, XBP-1)
TLX1..3_NFIC{dimer}.p2	4.943	Tlx1 (Hox-11, Hox11) Tlx3 (Rnx, Tlx1l2, Hox11l2)
ELF1,2,4.p2	4.942	Elf2 (NERF-2) Elf1 (p70, Elf-1, mElf-1) Elf4 (myeloid elf-1 like factor, MEF)
HNF4A_NR2F1,2.p2	4.812	Nr2f1 (COUP-TF1, Tcfcoup1, Erbal3, COUP-TFI) Nr2f2 (Tcfcoup2, COUP-TFII, ARP-1, EAR3, COUP-TF2, Aporp1) Hnf4a (Tcf4, Hnf4, Tcf14, Nuclear receptor 2A1, Nr2a1, HNF4 alpha, HNF-4, MODY1)
NR5A1,2.p2	4.681	Nr5a1 (Ad4BP, ELP, adrenal 4-binding protein, SF1, Ftz-F1, Ftzf1, SF-1, steroidogenic factor 1) Nr5a2 (D1Ertd308e, Ftf, LRH-1)
SRF.p3	4.631	Srf
NFY{A,B,C}.p2	4.605	Nfyc Nfyb (Cbf-A) Nfya (Sez10, Cbf-b)
ZFP161.p2	4.481	Zfp161 (ZF5)
PITX1..3.p2	4.439	Pitx2 (solurshin, Munc30, Brx1, Brx1a, Pitx2a, Pitx2b, Brx1b, Pitx2c, Otlx2, Rieg, Ptx2) Pitx3 (Ptx3) Pitx1 (P-OTX, Potx, Bft, Ptx1)
SNAI1..3.p2	4.322	Snai2 (Snail2, Slugh, Slug) Snai1 (Sna, Snail1, Snail, Sna1) Snai3 (Smuc, Snail-related gene from muscle cells, Zfp293)
MAFB.p2	4.297	Mafb (Krml, Kreisler, Krml1)
GATA6.p2	4.288	Gata6
RUNX1..3.p2	4.220	Runx1 (AML1, runt domain, alpha subunit 2, Pebp2a2, Cbfa2) Runx3 (Cbfa3, AML2) Runx2 (SL3-3 enhancer factor 1, AML3, polyomavirus enhancer binding factor 2 (PEBP2), PEBP2 alpha A, PEBP2aA, Cbfa1, Pebpa2a, Osf2)
TFCP2.p2	4.107	Tcfcp2 (UBP-1, CP-2, CP2, LBP-1d, LBP1, LBP-1c, LSF)
UGUGCUU	4.097	mmu-miR-218
FEV.p2	4.035	Fev (Pet1, mPet-1)
ETS1,2.p2	3.992	Ets2 (Ets-2) Ets1 (Tpl1, p51Ets-1, p42Ets-1, Ets-1)
ESRRA.p2	3.971	Esrra (ERRalpha, Estrra, Err1, Nr3b1)
KLF12.p2	3.913	Klf12 (AP-2rep)
TFAP2{A,C}.p2	3.879	Tcfap2c (AP2gamma, Ap-2.2, Stra2) Tcfap2a (AP-2 alpha, AP2alpha, Ap2tf, Ap-2 (a), Ap2)
KLF4.p3	3.878	Klf4 (EZF, Zie, Gklf)
MTF1.p2	3.785	Mtf1 (MTF-1, metal response element-binding transcription factor 1, metalloregulatory transcription factor, Thyls)
TFDP1.p2	3.696	Tfdp1 (Dp1, Drtf1)
AAGGCAC	3.696	mmu-miR-124
HBP1_HMGB_SSRP1_UBTF.p2	3.631	Hmgb2 (Hmg2, HMG-2) Hmgb3 (Hmg2a, Hmg4) Ssrp1 (Hmg1-rs1, Hmgox, Hmgi-rs3, T160) Ubtf (UBF1, UBF, Tcfubf) Hbp1 (C86454)
ZEB1.p2	3.517	Zeb1 (Zfx1a, Zfhx1a, MEB1, AREB6, [delta]EF1, ZEB, Tcf8, Zfhep, Tcf18, Nil2)
FOS_FOS{B,L1}_JUN{B,D}.p2	3.504	Fos (cFos, c-fos, D12Rfj1) Junb Fosl1 (fra-1, Fra1) Jund Fosb
ZBTB6.p2	3.363	Zbtb6 (Zfp482)
AGCACCA	3.350	mmu-miR-29a mmu-miR-29b mmu-miR-29c
EGR1..3.p2	3.316	Egr3 (Pilot) Egr1 (NGF1-A, NGFIA, Zenk, Egr-1, Krox-1, ETR103, TIS8, Krox-24, Zif268, Zfp-6, NGFI-A, Krox24) Egr2 (Egr-2, Krox-20, Zfp-25, NGF1-B, Krox20)
PRDM1.p3	3.311	Prdm1 (PRDI-BF1, Blimp-1, Blimp1)
DMAP1_NCOR{1,2}_SMARC.p2	3.310	Smarca1 (Snf2l) Smarcc2 Smarca5 (Snf2h, MommeD4) Ncor1 (N-CoR, Rxrip13) Ncor2 (SMRTe, SMRT) Dmap1
ZIC1..3.p2	3.281	Zic1 (odd-paired homolog) Zic2 (odd-paired homolog, Ku, GENA 29) Zic3
HSF1,2.p2	3.255	Hsf1 (heat shock transcription factor 1) Hsf2
MZF1.p2	3.219	Mzf1 (Znf42, Mzf2, Zfp121, Zfp98)
CCCUGAG	3.136	mmu-miR-125a-5p mmu-miR-125b-5p mmu-miR-351
TCF4_dimer.p2	3.127	Tcf4 (E2.2, bHLHb19, SEF-2, TFE, ME2, ITF-2b, ASP-I2, MITF-2A, SEF2-1, E2-2, ITF-2, MITF-2B)
bHLH_family.p2	3.085	Arntl (Bmal1, MOP3, bHLHe5, Arnt3) Mitf (bHLHe32, wh, mi) Mxi1 (Mad2, bHLHc11) Tcfe3 (Tfe-3, bHLHe33, Tfe3) Clock (bHLHe8, KAT13D) Olig2 (Olg-2, Bhlhb1, bHLHe19, RK17) Mxd4 (Mad4, bHLHc12) Hey2 (Hrt2, bHLHb32, Hesr2, Herp1, CHF1) Hey1 (bHLHb31, Hesr1, hesr-1, Herp2, HRT1) Heyl (Hey3, Hrt3, bHLHb33, Hesr3) Mlxipl (bHLHd14, Wbscr14, ChREBP, WS-bHLH) Hes6 (bHLHb41) Mxd3 (bHLHc13, Mad3) Arntl2 (MOP9, bHLHe6, BMAL2) Id1 (Idb1, D2Wsu140e, bHLHb24) Mnt (Rox, bHLHd3) Olig1 (Olg-1, Bhlhb6, bHLHe21) Npas2 (bHLHe9, MOP4)
GFI1.p2	3.062	Gfi1 (Pal-1, Gfi-1, Pal1)
FOX{F1,F2,J1}.p2	3.031	Foxf2 (Fkh20, LUN, FREAC2) Foxj1 (HFH-4, Hfh4, FKHL-13) Foxf1a (HFH-8, Hfh8, Freac-1, FREAC1, Foxf1)
ATF4.p2	2.990	Atf4 (CREB2, Atf-4, C/ATF, TAXREB67)
MYOD1.p2	2.989	Myod1 (Myod-1, bHLHc1, MyoD, MYF3)
TGIF1.p2	2.968	Tgif1 (Tgif)
AHR_ARNT_ARNT2.p2	2.963	Arnt (D3Ertd557e, bHLHe2, ESTM42, Hif1b) Ahr (Ahre, dioxin receptor, bHLHe76, Ahh, In, Ah) Arnt2 (bHLHe1)
ATF2.p2	2.916	Atf2 (Creb2, ATF-2, mXBP, CRE-BP)
ARNT_ARNT2_BHLHB2_MAX_MYC_USF1.p2	2.908	Arnt (D3Ertd557e, bHLHe2, ESTM42, Hif1b) Max (bHLHd7, bHLHd5, bHLHd8, bHLHd6, bHLHd4) Myc (Niard, Nird, bHLHe39, Myc2, c-myc) Usf1 (bHLHb11, upstream stimulatory factor) Bhlhe40 (eip1 (E47 interaction protein 1), Stra13, DEC1, Clast5, Bhlhb2, cytokine response gene 8, Stra14, CR8, Sharp2) Arnt2 (bHLHe1)
GGCAGUG	2.904	mmu-miR-34a mmu-miR-34b-5p mmu-miR-34c mmu-miR-449a mmu-miR-449b mmu-miR-449c
NFE2L1.p2	2.892	Nfe2l1 (TCF-11, TCF11, NRF1, LCR-F1, Lcrf1)
ZNF238.p2	2.879	Zfp238 (RP58)
FOXA2.p3	2.843	Foxa2 (Hnf3b, HNF3beta, HNF3-beta, Tcf3b, Hnf-3b, Tcf-3b)
GTF2I.p2	2.817	Gtf2i (TFII-I, BAP-135)
FOXD3.p2	2.816	Foxd3 (Hfh2, Genesis, CWH3)
LMO2.p2	2.773	Lmo2 (Rbtn-2, Rbtn2, Rhom-2)
MYFfamily.p2	2.751	Myod1 (Myod-1, bHLHc1, MyoD, MYF3) Myf6 (herculin, MRF4, bHLHc4) Myf5 (bHLHc2, Myf-5) Myog (bHLHc3, myo)
FOX{D1,D2}.p2	2.712	Foxd2 (Mf2) Foxd1 (FREAC4, BF-2, Hfh10, Hfhbf2)
JUN.p2	2.684	Jun (c-jun, Junc) Jund Junb
EHF.p2	2.670	Ehf
BPTF.p2	2.663	Bptf (Falz)
UAUUGCU	2.509	mmu-miR-137
HIC1.p2	2.505	Hic1 (HIC-1)
RXR{A,B,G}.p2	2.504	Rxra (RXR alpha 1, RXRalpha1) Rxrb (Nr2b2, H-2RIIBP, RCoR-1, Rub) Rxrg (Nr2b3)
CUUUGGU	2.481	mmu-miR-9
NFATC1..3.p2	2.471	Nfatc3 (D8Ertd281e, NFATx, NFAT4) Nfatc2 (NFAT1-D, NFAT1, NFATp) Nfatc1 (NFATc, NFAT2, NF-ATc)
ATF5_CREB3.p2	2.463	Atf5 (Atf7, AFTA, Atfx, ODA-10) Creb3 (LZIP-1, LZIP, Luman, LZIP-2)
MAZ.p2	2.451	Maz (Pur-1, SAF-1, PUR1, SAF-2)
HIF1A.p2	2.431	Hif1a (MOP1, bHLHe78, HIF-1alpha, HIF1alpha)
SP1.p2	2.400	Sp1 (Sp1-1)
PATZ1.p2	2.379	Patz1 (Zfp278, MAZR, POZ-AT hook-zinc finger protein)
CTCF.p2	2.367	Ctcf
NHLH1,2.p2	2.328	Nhlh1 (bHLHa35, Hen1, Tal2, Nscl) Nhlh2 (bHLHa34, NSCL2, Nscl-2, Hen2)
HAND1,2.p2	2.309	Hand1 (Thing1, Hxt, eHAND, bHLHa27, Th1, Ehand1) Hand2 (bHLHa26, Thing2, Hed, Ehand2, dHAND)
ATF6.p2	2.301	Atf6 (ESTM49, Atf6alpha)
GUAGUGU	2.288	mmu-miR-142-3p
UUGGUCC	2.271	mmu-miR-133a mmu-miR-133b
FOXL1.p2	2.243	Foxl1 (fkh6, Fkh6, FREAC7, fkh-6)
LEF1_TCF7_TCF7L1,2.p2	2.234	Tcf7 (TCF-1, T-cell factor 1, Tcf1, T cell factor-1) Tcf7l2 (mTcf-4E, Tcf4, mTcf-4B, TCF4E, Tcf-4, TCF4B) Lef1 (Lef-1, lymphoid enhancer factor 1) Tcf7l1 (Tcf3)
TBX4,5.p2	2.232	Tbx5 Tbx4
SOX17.p2	2.225	Sox17
IKZF1.p2	2.224	Ikzf1 (Ikaros, Zfpn1a1, LyF-1)
NR1H4.p2	2.212	Nr1h4 (RIP14, Rxrip14, HRR1, Fxr, FXR)
POU5F1.p2	2.203	Pou5f1 (Otf3-rs7, Oct3/4, Otf-4, Oct-3, Oct4, Otf3, Oct-3/4, Otf3g, Otf-3, Otf4, Oct-4)
TFEB.p2	2.200	Tcfeb (bHLHe35, TFEB)
TLX2.p2	2.198	Tlx2 (Ncx1, Enx, Hox11L.1, Tlx1l1, NCX, Hox11l1)
AACACUG	2.193	mmu-miR-141 mmu-miR-200a
UCCAGUU	2.193	mmu-miR-145
POU2F1..3.p2	2.189	Pou2f2 (Otf-2, Oct2b, Oct2a, Oct-2, Otf2) Pou2f1 (Oct-1C, Oct-1z, Oct1, Otf1, Oct-1A, Otf-1, oct-1, Oct-1B) Pou2f3 (Skin-1a, Skn-li, Skn-1a, Skin, Oct11, Otf11, Oct-11a, Otf-11, Epoc-1)
ADNP_IRX_SIX_ZHX.p2	2.188	Six5 (MDMAHP, TrexBF, Dmahp) Zhx1 Irx4 Adnp Zhx3 (Tix1) Zhx2 (Raf, Afr-1, Afr1) Irx5 Six2
AAUACUG	2.185	mmu-miR-200b mmu-miR-200c mmu-miR-429
SOX{8,9,10}.p2	2.175	Sox9 Sox8 Sox10 (Sox21)
ZNF384.p2	2.175	Zfp384 (Nmp4, Ciz)
FOX{I1,J2}.p2	2.172	Foxi1 (HFH-3, Fkh10, Hfh3) Foxj2 (Fhx)
SREBF1,2.p2	2.154	Srebf1 (SREBP-1a, SREBP1, SREBP-1c, SREBP-1, bHLHd1, ADD-1, SREBP1c) Srebf2 (bHLHd2, SREBP-2, SREBP2gc, SREBP2)
GLI1..3.p2	2.137	Gli1 (Zfp-5, Zfp5) Gli2 Gli3 (Bph, brachyphalangy)
HES1.p2	2.121	Hes1 (Hry, bHLHb39)
PRRX1,2.p2	2.107	Prrx2 (S8, Prx2) Prrx1 (Pmx1, Prx1, mHox, K-2)
HLF.p2	2.100	Hlf
FOSL2.p2	2.089	Fosl2 (Fra-2)
GGAAUGU	2.073	mmu-miR-1a mmu-miR-206
UGAAAUG	2.073	mmu-miR-203
BACH2.p2	2.073	Bach2
AAAGUGC	2.072	mmu-miR-17 mmu-miR-20a mmu-miR-20b mmu-miR-93 mmu-miR-106a mmu-miR-106b
GCAGCAU	2.059	mmu-miR-103 mmu-miR-107
GUAAACA	2.056	mmu-miR-30a mmu-miR-30b mmu-miR-30c mmu-miR-30d mmu-miR-30e mmu-miR-384-5p
ACAUUCA	2.053	mmu-miR-181a mmu-miR-181b mmu-miR-181c mmu-miR-181d
SOX2.p2	2.047	Sox2 (ysb, Sox-2, lcc)
CAGCAGG	2.039	mmu-miR-214 mmu-miR-761
POU1F1.p2	2.034	Pou1f1 (Pit1-rs1, Hmp1, GHF-1, Pit1, Pit-1)
CRX.p2	2.032	Crx (Crx1)
GGAAGAC	2.016	mmu-miR-7a mmu-miR-7b
HMGA1,2.p2	1.985	Hmga1 (Hmga1b, Hmgi, HMGI(Y), Hmga1a, HMG-I(Y), HMGY, Hmgiy) Hmga2 (HMGI-C, Hmgic)
DBP.p2	1.970	Dbp
EVI1.p2	1.966	Mecom (MDS1-EVI1, Prdm3, Jbo, Mds1, ZNFPR1B1, Evi-1, Evi1)
SOX5.p2	1.962	Sox5
AGCAGCA	1.950	mmu-miR-15a mmu-miR-15b mmu-miR-16 mmu-miR-195 mmu-miR-322 mmu-miR-497 mmu-miR-1907
STAT2,4,6.p2	1.942	Stat2 Stat4 Stat6
CCAGUGU	1.940	mmu-miR-199a-5p
GGCUCAG	1.930	mmu-miR-24
RREB1.p2	1.920	Rreb1
HOX{A4,D4}.p2	1.916	Hoxa4 (Hox-1.4) Hoxd4 (Hox-4.2, Hox-5.1)
AUGGCUU	1.911	mmu-miR-135a mmu-miR-135b
STAT1,3.p3	1.909	Stat1 Stat3 (Aprf)
CEBPA,B_DDIT3.p2	1.905	Ddit3 (CHOP-10, C/EBP homoologous protein 10, chop, gadd153, CHOP10) Cebpa (C/ebpalpha, Cebp, C/EBP alpha) Cebpb (CRP2, C/EBPbeta, Nfil6, LAP, C/EBP BETA, LIP, NF-M, IL-6DBP, NF-IL6)
EWSR1-FLI1.p2	1.903	Fli1 (EWSR2, Sic1, SIC-1, Fli-1) Ewsr1 (Ews)
NR6A1.p2	1.902	Nr6a1 (NCNF, Gcnf)
TFAP2B.p2	1.897	Tcfap2b (AP-2(beta))
AIRE.p2	1.880	Aire
GCUGGUG	1.869	mmu-miR-138
GUGCAAA	1.867	mmu-miR-19a mmu-miR-19b
PAX2.p2	1.856	Pax2 (Pax-2, Opdc)
GTF2A1,2.p2	1.856	Gtf2a1 (37kDa, 19kDa, TfIIAa/b) Gtf2a2 (TfIIg, 12kDa)
CDX1,2,4.p2	1.844	Cdx1 (Cdx, Cdx-1) Cdx2 (Cdx-2) Cdx4 (Cdx-3, Cdx-4, Cdx3)
ESR1.p2	1.836	Esr1 (ER-alpha, ERalpha, ESR, ER[a], Nr3a1, ERa, Estra, Estr)
NFE2.p2	1.831	Nfe2 (p45nf-e2, p45NFE2, p45, NF-E2)
GFI1B.p2	1.823	Gfi1b (Gfi-1B)
AAGUGCU	1.817	mmu-miR-291a-3p mmu-miR-294 mmu-miR-295 mmu-miR-302a mmu-miR-302b mmu-miR-302d
HMX1.p2	1.813	Hmx1 (Nkx5-3)
AUGGCAC	1.809	mmu-miR-183
NFE2L2.p2	1.806	Nfe2l2 (Nrf2)
GAGGUAG	1.806	mmu-let-7a mmu-let-7b mmu-let-7c mmu-let-7d mmu-let-7e mmu-let-7f mmu-let-7g mmu-let-7i mmu-miR-98 mmu-miR-1961
UUUUUGC	1.805	mmu-miR-129-5p
EN1,2.p2	1.801	En1 (engrailed-1, Mo-en.1, En-1) En2 (En-2)
ZNF423.p2	1.797	Zfp423 (ataxia1, Ebfaz, Zfp104, Roaz)
SPZ1.p2	1.795	Spz1
PBX1.p2	1.782	Pbx1 (Pbx-1)
ZNF148.p2	1.768	Zfp148 (beta enolase repressor factor 1, ZBP-89, BFCOL1, BERF-1)
FOX{C1,C2}.p2	1.763	Foxc1 (Mf1, frkhda, fkh-1, Mf4, FREAC3, fkh1, Fkh1) Foxc2 (Hfhbf3, Fkh14, MFH-1, Mfh1)
NKX6-1,2.p2	1.763	Nkx6-1 (NKX6A, Nkx6.1) Nkx6-2 (Nkx6.2, Gtx)
EBF1.p2	1.742	Ebf1 (Olf-1, Olf1, O/E-1)
UGCAUAG	1.739	mmu-miR-153
CREB1.p2	1.734	Creb1 (Creb-1, Creb)
PAX4.p2	1.724	Pax4 (Pax-4)
ZBTB16.p2	1.701	Zbtb16 (Zfp145, PLZF, Green's luxoid)
NKX3-2.p2	1.693	Nkx3-2 (Nkx-3.2, Bapx1)
POU5F1_SOX2{dimer}.p2	1.671	Pou5f1 (Otf3-rs7, Oct3/4, Otf-4, Oct-3, Oct4, Otf3, Oct-3/4, Otf3g, Otf-3, Otf4, Oct-4) Sox2 (ysb, Sox-2, lcc)
TFAP4.p2	1.658	Tcfap4 (bHLHc41, Tfap4, AP-4)
FOXQ1.p2	1.639	Foxq1 (Hfh1l, HFH-1, Hfh1, sa)
SMAD1..7,9.p2	1.621	Smad5 (MusMLP, Madh5, Smad 5) Smad1 (Smad 1, Madh1, Madr1) Smad3 (Smad 3, Madh3) Smad4 (Smad 4, DPC4, Dpc4, Madh4, D18Wsu70e) Smad2 (Smad 2, Madh2, Madr2) Smad6 (Smad 6, Madh6) Smad7 (Madh7) Smad9 (SMAD8A, SMAD8B, Madh9, MADH6)
NR3C1.p2	1.604	Nr3c1 (glucocorticoid receptor, GR, Grl1, Grl-1)
POU3F1..4.p2	1.602	Pou3f1 (Tst-1, Test1, Scip, Oct6, Oct-6, Tst1, Otf6) Pou3f3 (Brn1, Brn-1, Otf8) Pou3f2 (Otf7, Brn2, Brn-2) Pou3f4 (BRN-4, Otf9, Brn4)
MYBL2.p2	1.600	Mybl2 (Bmyb, B-Myb)
IKZF2.p2	1.579	Ikzf2 (Zfpn1a2, Helios)
AGCUUAU	1.578	mmu-miR-21 mmu-miR-590-5p
GUCAGUU	1.571	mmu-miR-223
NFIL3.p2	1.566	Nfil3 (E4BP4)
ONECUT1,2.p2	1.561	Onecut2 (OC-2, Oc2) Onecut1 (OC-1, HNF6, Hfh12, Hnf6, Oc1, D9Ertd423e)
NKX2-2,8.p2	1.556	Nkx2-2 (Nkx2.2, tinman, Nkx-2.2) Nkx2-9 (tinman, Nkx-2.9, Nkx2.9)
NANOG{mouse}.p2	1.552	Nanog (ecat4, ENK)
PAX5.p2	1.546	Pax5 (Pax-5, EBB-1)
EOMES.p2	1.544	Eomes (Tbr2)
HOX{A5,B5}.p2	1.487	Hoxb5 (Hox-2.1) Hoxa5 (Hox-1.3)
EP300.p2	1.487	Ep300 (KAT3B, p300)
HOXA9_MEIS1.p2	1.474	Meis1 Hoxa9 (Hox-1.7, D6a9)
LHX3,4.p2	1.469	Lhx3 (P-LIM, mLim-3, Lim3) Lhx4 (Gsh4, Gsh-4)
RXRA_VDR{dimer}.p2	1.458	Vdr (Nr1i1)
UCACAUU	1.452	mmu-miR-23a mmu-miR-23b
FOXN1.p2	1.444	Foxn1 (Hfh11, D11Bhm185e, whn)
FOXO1,3,4.p2	1.436	Foxo1 (FKHR, Foxo1a, Fkhr1, Afxh) Foxo4 (Mllt7, Foxo4, afx, Afxh) Foxo3 (FKHRL1, Foxo3a, Fkhr2)
ALX1.p2	1.416	Alx1 (Cart1)
NKX3-1.p2	1.408	Nkx3-1 (Nkx-3.1, bagpipe, NKX3.1, NKX3A, Bax)
NFIX.p2	1.408	Nfix
FOXP3.p2	1.399	Foxp3 (scurfin, JM2)
GCUACAU	1.397	mmu-miR-221 mmu-miR-222 mmu-miR-1928
NKX2-1,4.p2	1.396	Nkx2-1 (T/EBP, thyroid transcription factor-1, Titf1, thyroid-specific enhancer-binding protein, tinman, Ttf-1) Nkx2-4 (Nkx-2.4, tinman)
UUGGCAC	1.389	mmu-miR-96
CDC5L.p2	1.372	Cdc5l (PCDC5RP)
AGCUGCC	1.365	mmu-miR-22
AGUGGUU	1.344	mmu-miR-140 mmu-miR-876-3p
NANOG.p2	1.329	Nanog (ecat4, ENK)
SRY.p2	1.276	Sry (Tdf, Tdy)
CUCCCAA	1.276	mmu-miR-150 mmu-miR-5127
AGUGCAA	1.263	mmu-miR-130a mmu-miR-130b mmu-miR-301a mmu-miR-301b mmu-miR-721
RORA.p2	1.260	Rora (Nr1f1, tmgc26)
AGCAGCG	1.243	mmu-miR-503
UCAAGUA	1.225	mmu-miR-26a mmu-miR-26b
RBPJ.p2	1.216	Rbpj (RBPjk, RBP-J kappa, Rbpsuh, Igkjrb, CBF1, Igkrsbp)
CAGUGCA	1.209	mmu-miR-148a mmu-miR-148b mmu-miR-152
UCCCUUU	1.208	mmu-miR-204 mmu-miR-211
NKX2-3_NKX2-5.p2	1.206	Nkx2-5 (Nkx-2.5, Nkx2.5, Csx, tinman) Nkx2-3 (Nkx-2.3, tinman, Nkx2.3)
AACAGUC	1.191	mmu-miR-132 mmu-miR-212-3p
STAT5{A,B}.p2	1.188	Stat5b Stat5a (STAT5)
CCUUCAU	1.186	mmu-miR-205
GUAACAG	1.179	mmu-miR-194
AUUGCAC	1.176	mmu-miR-25 mmu-miR-32 mmu-miR-92a mmu-miR-92b mmu-miR-363-3p mmu-miR-367
AR.p2	1.138	Ar
UUGUUCG	1.130	mmu-miR-375
CCAGCAU	1.113	mmu-miR-338-3p
RXRG_dimer.p3	1.108	Nr1h2 (LXRbeta, RIP15, Unr2, LXRB) Rxra (RXR alpha 1, RXRalpha1) Pparg (Ppar-gamma2, PPAR-gamma, PPARgamma, PPARgamma2, Nr1c3) Ppara (PPAR-alpha, PPARalpha, Nr1c1, Ppar) Rxrb (Nr2b2, H-2RIIBP, RCoR-1, Rub) Rxrg (Nr2b3)
T.p2	1.101	T (T1, Bra)
UUGGCAA	1.093	mmu-miR-182
GAUCAGA	1.091	mmu-miR-383
AAGGUGC	1.088	mmu-miR-18a mmu-miR-18b
UGCAUUG	1.084	mmu-miR-33
TAL1_TCF{3,4,12}.p2	1.079	Tcf3 (ALF2, E12, bHLHb21, Tcfe2a, A1, E47, Pan1, E2A, Pan2) Tcf4 (E2.2, bHLHb19, SEF-2, TFE, ME2, ITF-2b, ASP-I2, MITF-2A, SEF2-1, E2-2, ITF-2, MITF-2B) Tal1 (bHLHa17, Scl, SCL/tal-1) Tcf12 (HTF4, bHLHb20, HEB, HTF-4, REB, ALF1, HEBAlt, ME1)
ACAGUAC	1.072	mmu-miR-101a mmu-miR-101b
CUX2.p2	1.065	Cux2 (ENSMUSG00000072641, Cux-2, Cutl2, Cux2)
GGCAAGA	1.018	mmu-miR-31
AAUGCCC	1.004	mmu-miR-365
GAUUGUC	1.001	mmu-miR-219-5p
UAAGACG	0.995	mmu-miR-208a-3p mmu-miR-208b
PAX6.p2	0.989	Pax6 (Pax-6, Dickie's small eye, AEY11, Dey, Gsfaey11)
ARID5B.p2	0.983	Arid5b (Mrf2, Mrf2alpha, Desrt, Mrf2beta)
UAAGACU	0.955	mmu-miR-499
TP53.p2	0.936	Trp53 (p44, p53)
GZF1.p2	0.931	Gzf1 (Zfp336)
CACAGUG	0.918	mmu-miR-128
UAAUGCU	0.870	mmu-miR-155
AGGUAGU	0.853	mmu-miR-196a mmu-miR-196b
ACUGGCC	0.840	mmu-miR-193 mmu-miR-193b
ACAGUAU	0.837	mmu-miR-144
POU6F1.p2	0.830	Pou6f1 (Emb, cns-1)
ACCCUGU	0.811	mmu-miR-10a mmu-miR-10b
UCACAGU	0.790	mmu-miR-27a mmu-miR-27b
ACUGCAU	0.786	mmu-miR-217
AUGACAC	0.779	mmu-miR-425 mmu-miR-489
GAGAACU	0.754	mmu-miR-146a mmu-miR-146b
CUACAGU	0.729	mmu-miR-139-5p
PPARG.p2	0.710	Pparg (Ppar-gamma2, PPAR-gamma, PPARgamma, PPARgamma2, Nr1c3)
MSX1,2.p2	0.675	Msx1 (msh, Hox7.1, Hox7, muscle-segment homeobox, Hox-7) Msx2 (Hox-8, Hox8, Hox8.1)
VSX1,2.p2	0.664	Vsx2 (Hox10, Chx10, Hox-10) Vsx1 (CHX10-like)
GAGAUGA	0.660	mmu-miR-143
AAUCUCU	0.596	mmu-miR-216b
PDX1.p2	0.545	Pdx1 (Ipf1, IPF-1, pdx-1, STF-1, Mody4, IDX-1)
GGACGGA	0.477	mmu-miR-184
AACGGAA	0.471	mmu-miR-191
CGUGUCU	0.449	mmu-miR-187
GGAGUGU	0.449	mmu-miR-122
AAUCUCA	0.426	mmu-miR-216a
AACCUGG	0.365	mmu-miR-490-3p
GAUAUGU	0.360	mmu-miR-190 mmu-miR-190b
CGUACCG	0.336	mmu-miR-126-3p
UGACCUA	0.313	mmu-miR-192 mmu-miR-215
UGUGCGU	0.288	mmu-miR-210
PAX3,7.p2	0.177	Pax7 (Pax-7) Pax3 (Pax-3)
PAX8.p2	0.174	Pax8 (Pax-8)
AACCGUU	0.102	mmu-miR-451
ACCCGUA	0.024	mmu-miR-99a mmu-miR-99b mmu-miR-100