Motif ID: Rfx3_Rfx1_Rfx4

Z-value: 3.377

Transcription factors associated with Rfx3_Rfx1_Rfx4:

Gene SymbolEntrez IDGene Name
Rfx1 ENSMUSG00000031706.6 Rfx1
Rfx3 ENSMUSG00000040929.10 Rfx3
Rfx4 ENSMUSG00000020037.9 Rfx4

Activity-expression correlation:

Gene SymbolPromoterPearson corr. coef.P-valuePlot
Rfx1mm10_v2_chr8_+_84066824_84066882-0.289.4e-02Click!
Rfx3mm10_v2_chr19_-_28010995_28011054-0.173.2e-01Click!
Rfx4mm10_v2_chr10_+_84756055_84756084-0.163.3e-01Click!


Activity profile for motif Rfx3_Rfx1_Rfx4.

activity profile for motif Rfx3_Rfx1_Rfx4


Sorted Z-values histogram for motif Rfx3_Rfx1_Rfx4

Sorted Z-values for motif Rfx3_Rfx1_Rfx4



Network of associatons between targets according to the STRING database.



First level regulatory network of Rfx3_Rfx1_Rfx4

PNG image of the network

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Top targets:


Showing 1 to 20 of 200 entries
PromoterScoreRefseqGene SymbolGene Name
chr18_+_60925612 56.997 ENSMUST00000102888.3
ENSMUST00000025519.4
 Camk2a

calcium/calmodulin-dependent protein kinase II alpha

chr15_+_98167806 19.874 ENSMUST00000031914.4
 AI836003
expressed sequence AI836003
chr18_+_60925644 17.906 ENSMUST00000115297.1
 Camk2a
calcium/calmodulin-dependent protein kinase II alpha
chr7_-_31051431 17.099 ENSMUST00000073892.4
 Fxyd7
FXYD domain-containing ion transport regulator 7
chr5_+_24985840 16.720 ENSMUST00000075081.6
 1500035N22Rik
RIKEN cDNA 1500035N22 gene
chrX_+_7919816 15.426 ENSMUST00000041096.3
 Pcsk1n
proprotein convertase subtilisin/kexin type 1 inhibitor
chr7_-_140082246 15.237 ENSMUST00000166758.2
 Caly
calcyon neuron-specific vesicular protein
chr7_-_140082489 14.883 ENSMUST00000026541.7
 Caly
calcyon neuron-specific vesicular protein
chr4_-_119415494 14.298 ENSMUST00000063642.2
 Ccdc30
coiled-coil domain containing 30
chr11_-_105944412 14.136 ENSMUST00000019734.4
ENSMUST00000184269.1
ENSMUST00000150563.1
 Cyb561


cytochrome b-561


chr8_+_94772009 13.085 ENSMUST00000034230.5
 Cx3cl1
chemokine (C-X3-C motif) ligand 1
chr2_+_121289589 12.126 ENSMUST00000094639.3
 Map1a
microtubule-associated protein 1 A
chr11_-_105944128 11.446 ENSMUST00000184086.1
 Cyb561
cytochrome b-561
chr12_-_84148449 11.265 ENSMUST00000061425.2
 Pnma1
paraneoplastic antigen MA1
chr9_+_59589288 10.109 ENSMUST00000121266.1
ENSMUST00000118164.1
 Celf6

CUGBP, Elav-like family member 6

chr7_-_4546567 10.090 ENSMUST00000065957.5
 Syt5
synaptotagmin V
chr7_+_126847908 9.440 ENSMUST00000147257.1
ENSMUST00000139174.1
 Doc2a

double C2, alpha

chr19_-_57197556 9.183 ENSMUST00000099294.2
 Ablim1
actin-binding LIM protein 1
chr19_-_57197435 9.031 ENSMUST00000111550.1
 Ablim1
actin-binding LIM protein 1
chr17_+_34629533 8.932 ENSMUST00000015620.6
 Prrt1
proline-rich transmembrane protein 1

Gene Ontology Analysis

Gene overrepresentation in biological_process category:

Showing 1 to 20 of 249 entries
Log-likelihood per target Total log-likelihoodTermDescription
6.2 80.9 GO:0099628 receptor diffusion trapping(GO:0098953) postsynaptic neurotransmitter receptor diffusion trapping(GO:0098970) neurotransmitter receptor diffusion trapping(GO:0099628)
1.2 33.2 GO:0048268 clathrin coat assembly(GO:0048268)
0.4 33.2 GO:0030032 lamellipodium assembly(GO:0030032)
0.3 27.0 GO:0022900 electron transport chain(GO:0022900)
0.5 19.5 GO:0048791 calcium ion-regulated exocytosis of neurotransmitter(GO:0048791)
0.2 17.8 GO:1903955 positive regulation of protein targeting to mitochondrion(GO:1903955)
3.1 15.7 GO:0032423 regulation of mismatch repair(GO:0032423)
0.8 15.4 GO:0016486 peptide hormone processing(GO:0016486)
0.7 15.3 GO:0045063 T-helper 1 cell differentiation(GO:0045063)
3.0 15.1 GO:2000325 regulation of ligand-dependent nuclear receptor transcription coactivator activity(GO:2000325) positive regulation of ligand-dependent nuclear receptor transcription coactivator activity(GO:2000327)
0.7 13.7 GO:0071625 vocalization behavior(GO:0071625)
3.3 13.1 GO:0032914 positive regulation of transforming growth factor beta1 production(GO:0032914)
1.4 12.9 GO:0048170 positive regulation of long-term neuronal synaptic plasticity(GO:0048170)
0.4 12.6 GO:0045494 photoreceptor cell maintenance(GO:0045494)
1.7 12.1 GO:0035093 spermatogenesis, exchange of chromosomal proteins(GO:0035093)
0.5 11.3 GO:0099517 anterograde synaptic vesicle transport(GO:0048490) synaptic vesicle cytoskeletal transport(GO:0099514) synaptic vesicle transport along microtubule(GO:0099517)
0.3 10.5 GO:0002437 inflammatory response to antigenic stimulus(GO:0002437)
0.2 10.0 GO:2000649 regulation of sodium ion transmembrane transporter activity(GO:2000649)
0.4 9.3 GO:0032011 ARF protein signal transduction(GO:0032011) regulation of ARF protein signal transduction(GO:0032012)
0.2 9.1 GO:0032418 lysosome localization(GO:0032418)

Gene overrepresentation in cellular_component category:

Showing 1 to 20 of 137 entries
Log-likelihood per target Total log-likelihoodTermDescription
25.0 74.9 GO:0099573 glutamatergic postsynaptic density(GO:0099573)
0.3 38.2 GO:0001725 stress fiber(GO:0001725) contractile actin filament bundle(GO:0097517)
0.1 32.6 GO:0098852 lysosomal membrane(GO:0005765) lytic vacuole membrane(GO:0098852)
0.1 29.3 GO:0048471 perinuclear region of cytoplasm(GO:0048471)
0.0 25.5 GO:0005887 integral component of plasma membrane(GO:0005887)
4.6 18.5 GO:1990769 proximal neuron projection(GO:1990769)
0.1 15.9 GO:0030141 secretory granule(GO:0030141)
0.0 11.7 GO:0016607 nuclear speck(GO:0016607)
0.1 11.0 GO:0001669 acrosomal vesicle(GO:0001669)
0.1 11.0 GO:0019867 mitochondrial outer membrane(GO:0005741) outer membrane(GO:0019867) organelle outer membrane(GO:0031968)
0.3 10.7 GO:0097546 ciliary base(GO:0097546)
0.4 10.6 GO:0016581 NuRD complex(GO:0016581) CHD-type complex(GO:0090545)
0.5 9.5 GO:0044224 juxtaparanode region of axon(GO:0044224)
0.3 9.4 GO:0035371 microtubule plus-end(GO:0035371)
0.3 8.8 GO:0031430 M band(GO:0031430)
0.2 8.8 GO:0097610 cleavage furrow(GO:0032154) cell surface furrow(GO:0097610)
0.3 8.1 GO:0034451 centriolar satellite(GO:0034451)
0.5 7.9 GO:1904115 axon cytoplasm(GO:1904115)
0.7 7.6 GO:0005915 zonula adherens(GO:0005915)
0.8 7.4 GO:0097442 CA3 pyramidal cell dendrite(GO:0097442)

Gene overrepresentation in molecular_function category:

Showing 1 to 20 of 175 entries
Log-likelihood per target Total log-likelihoodTermDescription
7.6 90.7 GO:0009931 calcium-dependent protein serine/threonine kinase activity(GO:0009931)
3.8 30.1 GO:0032051 clathrin light chain binding(GO:0032051)
0.1 30.0 GO:0008017 microtubule binding(GO:0008017)
8.5 25.6 GO:0022865 transmembrane electron transfer carrier(GO:0022865)
0.5 21.1 GO:0005544 calcium-dependent phospholipid binding(GO:0005544)
0.0 15.4 GO:0003779 actin binding(GO:0003779)
0.3 15.2 GO:0004867 serine-type endopeptidase inhibitor activity(GO:0004867)
0.5 15.1 GO:0032183 SUMO binding(GO:0032183)
0.2 13.9 GO:0016247 channel regulator activity(GO:0016247)
0.5 13.1 GO:0048020 CCR chemokine receptor binding(GO:0048020)
0.3 12.4 GO:0017080 sodium channel regulator activity(GO:0017080)
3.0 12.1 GO:0061628 H3K27me3 modified histone binding(GO:0061628)
0.3 11.9 GO:0005112 Notch binding(GO:0005112)
0.3 11.6 GO:0005246 calcium channel regulator activity(GO:0005246)
0.1 10.3 GO:0008565 protein transporter activity(GO:0008565)
0.2 10.2 GO:0004693 cyclin-dependent protein serine/threonine kinase activity(GO:0004693)
0.1 9.6 GO:0004930 G-protein coupled receptor activity(GO:0004930)
0.3 9.3 GO:0005086 ARF guanyl-nucleotide exchange factor activity(GO:0005086)
0.1 8.8 GO:0008013 beta-catenin binding(GO:0008013)
0.2 8.4 GO:0046875 ephrin receptor binding(GO:0046875)

Gene overrepresentation in C2:CP category:

Showing 1 to 20 of 44 entries
Log-likelihood per target Total log-likelihoodTermDescription
3.3 74.9 ST_WNT_CA2_CYCLIC_GMP_PATHWAY Wnt/Ca2+/cyclic GMP signaling.
0.2 20.5 PID_BETA_CATENIN_NUC_PATHWAY Regulation of nuclear beta catenin signaling and target gene transcription
0.5 15.7 PID_IL8_CXCR1_PATHWAY IL8- and CXCR1-mediated signaling events
0.1 12.0 PID_P53_DOWNSTREAM_PATHWAY Direct p53 effectors
0.1 10.4 PID_NOTCH_PATHWAY Notch signaling pathway
0.3 8.0 ST_GA12_PATHWAY G alpha 12 Pathway
0.2 7.8 PID_ECADHERIN_STABILIZATION_PATHWAY Stabilization and expansion of the E-cadherin adherens junction
0.1 6.8 NABA_ECM_AFFILIATED Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
0.2 6.6 PID_EPHA_FWDPATHWAY EPHA forward signaling
0.0 6.6 NABA_ECM_GLYCOPROTEINS Genes encoding structural ECM glycoproteins
0.2 5.0 ST_GRANULE_CELL_SURVIVAL_PATHWAY Granule Cell Survival Pathway is a specific case of more general PAC1 Receptor Pathway.
0.1 4.7 PID_P73PATHWAY p73 transcription factor network
0.1 4.4 PID_BMP_PATHWAY BMP receptor signaling
0.1 3.9 PID_RAC1_REG_PATHWAY Regulation of RAC1 activity
0.0 3.9 NABA_SECRETED_FACTORS Genes encoding secreted soluble factors
0.1 3.5 PID_CERAMIDE_PATHWAY Ceramide signaling pathway
0.1 3.3 SIG_REGULATION_OF_THE_ACTIN_CYTOSKELETON_BY_RHO_GTPASES Genes related to regulation of the actin cytoskeleton
0.1 3.2 PID_NCADHERIN_PATHWAY N-cadherin signaling events
0.1 2.9 PID_E2F_PATHWAY E2F transcription factor network
0.1 2.6 PID_MYC_PATHWAY C-MYC pathway

Gene overrepresentation in C2:CP:REACTOME category:

Showing 1 to 20 of 69 entries
Log-likelihood per target Total log-likelihoodTermDescription
3.1 77.2 REACTOME_CREB_PHOSPHORYLATION_THROUGH_THE_ACTIVATION_OF_CAMKII Genes involved in CREB phosphorylation through the activation of CaMKII
1.3 35.7 REACTOME_DCC_MEDIATED_ATTRACTIVE_SIGNALING Genes involved in DCC mediated attractive signaling
0.9 22.4 REACTOME_TRAFFICKING_OF_GLUR2_CONTAINING_AMPA_RECEPTORS Genes involved in Trafficking of GluR2-containing AMPA receptors
0.2 21.1 REACTOME_REGULATION_OF_INSULIN_SECRETION Genes involved in Regulation of Insulin Secretion
0.6 15.3 REACTOME_OTHER_SEMAPHORIN_INTERACTIONS Genes involved in Other semaphorin interactions
0.2 13.8 REACTOME_NRAGE_SIGNALS_DEATH_THROUGH_JNK Genes involved in NRAGE signals death through JNK
0.5 11.8 REACTOME_CHEMOKINE_RECEPTORS_BIND_CHEMOKINES Genes involved in Chemokine receptors bind chemokines
0.3 10.5 REACTOME_RAP1_SIGNALLING Genes involved in Rap1 signalling
0.2 8.5 REACTOME_ASSOCIATION_OF_TRIC_CCT_WITH_TARGET_PROTEINS_DURING_BIOSYNTHESIS Genes involved in Association of TriC/CCT with target proteins during biosynthesis
0.4 7.0 REACTOME_ACTIVATION_OF_THE_AP1_FAMILY_OF_TRANSCRIPTION_FACTORS Genes involved in Activation of the AP-1 family of transcription factors
0.1 6.3 REACTOME_MITOCHONDRIAL_PROTEIN_IMPORT Genes involved in Mitochondrial Protein Import
0.2 6.2 REACTOME_ACTIVATED_NOTCH1_TRANSMITS_SIGNAL_TO_THE_NUCLEUS Genes involved in Activated NOTCH1 Transmits Signal to the Nucleus
0.2 5.8 REACTOME_SYNTHESIS_OF_PA Genes involved in Synthesis of PA
0.3 5.7 REACTOME_VIRAL_MESSENGER_RNA_SYNTHESIS Genes involved in Viral Messenger RNA Synthesis
0.2 5.7 REACTOME_ADHERENS_JUNCTIONS_INTERACTIONS Genes involved in Adherens junctions interactions
0.4 5.5 REACTOME_TRAFFICKING_OF_AMPA_RECEPTORS Genes involved in Trafficking of AMPA receptors
0.3 5.2 REACTOME_POST_CHAPERONIN_TUBULIN_FOLDING_PATHWAY Genes involved in Post-chaperonin tubulin folding pathway
0.1 5.2 REACTOME_MRNA_SPLICING Genes involved in mRNA Splicing
0.4 5.1 REACTOME_HDL_MEDIATED_LIPID_TRANSPORT Genes involved in HDL-mediated lipid transport
0.1 4.4 REACTOME_SIGNALING_BY_BMP Genes involved in Signaling by BMP