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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Nr4a3

Z-value: 0.40

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Transcription factors associated with Nr4a3

Gene Symbol Gene ID Gene Info
Nr4a3
ENSRNOG00000005964 nuclear receptor subfamily 4, group A, member 3

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
Nr4a3rn6_v1_chr5_+_63781801_63781801-0.392.5e-13Click!

Activity profile of Nr4a3 motif

Sorted Z-values of Nr4a3 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr8_-_50531423 24.04 ENSRNOT00000090985
ENSRNOT00000074942
Apoc3
apolipoprotein C3
chr2_-_243407608 13.77 ENSRNOT00000014631
Mttp
microsomal triglyceride transfer protein
chr1_-_141579871 13.50 ENSRNOT00000020002
Anpep
alanyl aminopeptidase, membrane
chr8_-_77398156 10.04 ENSRNOT00000091858
ENSRNOT00000085349
ENSRNOT00000082763
Lipc
lipase C, hepatic type
chr4_-_15505362 9.95 ENSRNOT00000009763
Hgf
hepatocyte growth factor
chr11_-_69201380 9.46 ENSRNOT00000085618
Mylk
myosin light chain kinase
chr7_-_70661891 6.81 ENSRNOT00000010240
Inhbc
inhibin beta C subunit
chrX_-_139916883 6.61 ENSRNOT00000090442
Gpc3
glypican 3
chr10_+_71159869 6.46 ENSRNOT00000075977
ENSRNOT00000047427
Hnf1b
HNF1 homeobox B
chr8_-_119265157 5.92 ENSRNOT00000056100
Rtp3
receptor (chemosensory) transporter protein 3
chr3_-_92749121 5.05 ENSRNOT00000008760
Cd44
CD44 molecule (Indian blood group)
chr11_+_83868655 4.85 ENSRNOT00000072402
NEWGENE_621438
thrombopoietin
chr15_-_14510828 4.77 ENSRNOT00000039347
Sntn
sentan, cilia apical structure protein
chrX_-_23144324 4.50 ENSRNOT00000000178
ENSRNOT00000081239
Pfkfb1
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1
chr20_+_3875706 4.43 ENSRNOT00000036900
RT1-Ha
RT1 class II, locus Ha
chr1_-_141188031 3.59 ENSRNOT00000044567
Polg
DNA polymerase gamma, catalytic subunit
chrX_-_4945944 3.02 ENSRNOT00000077238
Kdm6a
lysine demethylase 6A
chr4_-_131694755 2.26 ENSRNOT00000013271
Foxp1
forkhead box P1
chr12_-_46718355 2.17 ENSRNOT00000030031
Rab35
RAB35, member RAS oncogene family
chr3_+_153398130 2.15 ENSRNOT00000068135
Rpn2
ribophorin II
chr1_+_196996581 2.15 ENSRNOT00000021690
Il21r
interleukin 21 receptor
chr16_-_85464002 2.14 ENSRNOT00000037018
AABR07026596.1

chr12_+_47024442 2.11 ENSRNOT00000001545
Cox6a1
cytochrome c oxidase subunit 6A1
chr2_-_207300854 1.80 ENSRNOT00000018061
Mov10
Mov10 RISC complex RNA helicase
chr1_+_167373678 1.78 ENSRNOT00000027685
ENSRNOT00000088370
Stim1
stromal interaction molecule 1
chr19_-_54245855 1.71 ENSRNOT00000023855
Emc8
ER membrane protein complex subunit 8
chr12_-_2843772 1.56 ENSRNOT00000061750
Cd209c
CD209c molecule
chr4_+_176994129 1.39 ENSRNOT00000018734
Cmas
cytidine monophosphate N-acetylneuraminic acid synthetase
chr16_-_37159745 1.33 ENSRNOT00000084469
Fbxo8
F-box protein 8
chr15_-_106678918 1.13 ENSRNOT00000034723
Stk24
serine/threonine kinase 24
chr1_+_226091774 1.12 ENSRNOT00000027693
Fads3
fatty acid desaturase 3
chr10_-_49009156 1.12 ENSRNOT00000072970
Mapk7
mitogen-activated protein kinase 7
chr12_-_2786628 1.09 ENSRNOT00000001348
RGD1564571
similar to DC-SIGN
chr10_+_88764732 1.02 ENSRNOT00000026662
Stat5a
signal transducer and activator of transcription 5A
chr20_+_3827367 0.61 ENSRNOT00000079967
Rxrb
retinoid X receptor beta
chr4_-_145487426 0.34 ENSRNOT00000013488
Emc3
ER membrane protein complex subunit 3
chr12_+_6283288 0.10 ENSRNOT00000001203
Wdr95
WD40 repeat domain 95
chr1_-_219544328 0.09 ENSRNOT00000025847
Grk2
G protein-coupled receptor kinase 2

Network of associatons between targets according to the STRING database.

First level regulatory network of Nr4a3

PNG image of the network

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Log-likelihood per target  Total log-likelihood Term Description
8.0 24.0 GO:0010903 negative regulation of very-low-density lipoprotein particle remodeling(GO:0010903) regulation of high-density lipoprotein particle clearance(GO:0010982)
3.3 10.0 GO:0010034 response to acetate(GO:0010034)
2.5 9.9 GO:1902947 regulation of tau-protein kinase activity(GO:1902947)
2.4 9.5 GO:0060414 aorta smooth muscle tissue morphogenesis(GO:0060414)
2.2 6.5 GO:0061235 mesonephros morphogenesis(GO:0061206) mesonephric nephron development(GO:0061215) mesonephric nephron morphogenesis(GO:0061228) mesenchymal stem cell maintenance involved in mesonephric nephron morphogenesis(GO:0061235) regulation of mesenchymal cell apoptotic process involved in mesonephric nephron morphogenesis(GO:0061295) negative regulation of mesenchymal cell apoptotic process involved in mesonephric nephron morphogenesis(GO:0061296) mesenchymal cell apoptotic process involved in mesonephric nephron morphogenesis(GO:1901146)
1.7 13.8 GO:0034197 acylglycerol transport(GO:0034196) triglyceride transport(GO:0034197)
1.7 6.6 GO:0072180 mesonephric duct morphogenesis(GO:0072180)
1.6 4.8 GO:0038163 thrombopoietin-mediated signaling pathway(GO:0038163)
1.3 5.0 GO:1900625 regulation of monocyte aggregation(GO:1900623) positive regulation of monocyte aggregation(GO:1900625)
1.1 13.5 GO:0035814 negative regulation of renal sodium excretion(GO:0035814)
0.8 2.3 GO:0061470 T follicular helper cell differentiation(GO:0061470)
0.6 3.0 GO:0071557 histone H3-K27 demethylation(GO:0071557)
0.6 3.6 GO:0006287 base-excision repair, gap-filling(GO:0006287)
0.6 4.5 GO:0033133 positive regulation of glucokinase activity(GO:0033133)
0.4 1.8 GO:0098795 mRNA cleavage involved in gene silencing by miRNA(GO:0035279) mRNA cleavage involved in gene silencing(GO:0098795)
0.3 2.2 GO:0048227 plasma membrane to endosome transport(GO:0048227)
0.3 5.9 GO:0051205 protein insertion into membrane(GO:0051205)
0.3 1.0 GO:0046544 development of secondary male sexual characteristics(GO:0046544) regulation of mast cell differentiation(GO:0060375)
0.2 4.4 GO:0019886 antigen processing and presentation of exogenous peptide antigen via MHC class II(GO:0019886)
0.2 1.1 GO:0070375 ERK5 cascade(GO:0070375)
0.2 1.8 GO:0032237 activation of store-operated calcium channel activity(GO:0032237)
0.1 1.4 GO:0006054 N-acetylneuraminate metabolic process(GO:0006054)
0.1 6.8 GO:0010862 positive regulation of pathway-restricted SMAD protein phosphorylation(GO:0010862)
0.1 1.1 GO:0048680 positive regulation of axon regeneration(GO:0048680)
0.1 1.0 GO:0006123 mitochondrial electron transport, cytochrome c to oxygen(GO:0006123)
0.0 0.7 GO:0032012 regulation of ARF protein signal transduction(GO:0032012)
0.0 0.3 GO:0034975 protein folding in endoplasmic reticulum(GO:0034975)
0.0 2.2 GO:0006487 protein N-linked glycosylation(GO:0006487)
0.0 0.1 GO:0045988 regulation of the force of heart contraction by chemical signal(GO:0003057) negative regulation of striated muscle contraction(GO:0045988)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
4.0 24.0 GO:0034363 intermediate-density lipoprotein particle(GO:0034363)
1.7 5.0 GO:0035692 macrophage migration inhibitory factor receptor complex(GO:0035692)
1.2 3.6 GO:0005760 gamma DNA polymerase complex(GO:0005760)
1.0 13.5 GO:0031983 vesicle lumen(GO:0031983)
0.5 13.8 GO:0031528 microvillus membrane(GO:0031528)
0.4 10.0 GO:0034364 high-density lipoprotein particle(GO:0034364)
0.3 4.4 GO:0042613 MHC class II protein complex(GO:0042613)
0.2 3.0 GO:0044666 MLL3/4 complex(GO:0044666)
0.2 9.5 GO:0032154 cleavage furrow(GO:0032154) cell surface furrow(GO:0097610)
0.2 2.0 GO:0072546 ER membrane protein complex(GO:0072546)
0.2 1.8 GO:0032541 cortical endoplasmic reticulum(GO:0032541)
0.1 6.6 GO:0046658 anchored component of plasma membrane(GO:0046658)
0.1 2.2 GO:0008250 oligosaccharyltransferase complex(GO:0008250)
0.1 2.2 GO:0045334 clathrin-coated endocytic vesicle(GO:0045334)
0.1 1.0 GO:0005751 mitochondrial respiratory chain complex IV(GO:0005751)
0.0 1.8 GO:0000932 cytoplasmic mRNA processing body(GO:0000932)
0.0 4.0 GO:0061695 transferase complex, transferring phosphorus-containing groups(GO:0061695)
0.0 6.5 GO:0005667 transcription factor complex(GO:0005667)
0.0 20.6 GO:0005615 extracellular space(GO:0005615)
0.0 1.1 GO:0016605 PML body(GO:0016605)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
8.0 24.0 GO:0070653 high-density lipoprotein particle receptor binding(GO:0070653)
2.4 9.5 GO:0004687 myosin light chain kinase activity(GO:0004687)
1.7 10.0 GO:0008970 phosphatidylcholine 1-acylhydrolase activity(GO:0008970)
1.2 5.9 GO:0031849 olfactory receptor binding(GO:0031849)
0.8 3.0 GO:0071558 histone demethylase activity (H3-K27 specific)(GO:0071558)
0.7 13.8 GO:0034185 apolipoprotein binding(GO:0034185)
0.6 4.5 GO:0070095 fructose-6-phosphate binding(GO:0070095)
0.6 13.5 GO:0070006 metalloaminopeptidase activity(GO:0070006)
0.5 5.0 GO:0005114 type II transforming growth factor beta receptor binding(GO:0005114)
0.4 9.9 GO:0042056 chemoattractant activity(GO:0042056)
0.3 6.6 GO:0043395 heparan sulfate proteoglycan binding(GO:0043395)
0.2 6.8 GO:0005160 transforming growth factor beta receptor binding(GO:0005160)
0.2 2.2 GO:0004579 oligosaccharyl transferase activity(GO:0004576) dolichyl-diphosphooligosaccharide-protein glycotransferase activity(GO:0004579)
0.1 1.4 GO:0070567 cytidylyltransferase activity(GO:0070567)
0.1 3.6 GO:0003887 DNA-directed DNA polymerase activity(GO:0003887)
0.1 4.4 GO:0042605 peptide antigen binding(GO:0042605)
0.1 1.8 GO:0015279 store-operated calcium channel activity(GO:0015279)
0.1 8.7 GO:0003705 transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding(GO:0003705)
0.0 1.1 GO:0004707 MAP kinase activity(GO:0004707)
0.0 1.0 GO:0015002 cytochrome-c oxidase activity(GO:0004129) heme-copper terminal oxidase activity(GO:0015002) oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor(GO:0016676)
0.0 2.2 GO:0019003 GDP binding(GO:0019003)
0.0 4.8 GO:0005179 hormone activity(GO:0005179)
0.0 0.7 GO:0005086 ARF guanyl-nucleotide exchange factor activity(GO:0005086)
0.0 2.1 GO:0004896 cytokine receptor activity(GO:0004896)
0.0 0.1 GO:0047696 beta-adrenergic receptor kinase activity(GO:0047696)
0.0 1.0 GO:0000979 RNA polymerase II core promoter sequence-specific DNA binding(GO:0000979)
0.0 1.1 GO:0004702 receptor signaling protein serine/threonine kinase activity(GO:0004702)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.3 5.0 SA MMP CYTOKINE CONNECTION Cytokines can induce activation of matrix metalloproteinases, which degrade extracellular matrix.
0.3 11.3 PID ARF6 PATHWAY Arf6 signaling events
0.2 9.5 PID AURORA B PATHWAY Aurora B signaling
0.1 13.5 PID CMYB PATHWAY C-MYB transcription factor network
0.1 6.5 PID HNF3B PATHWAY FOXA2 and FOXA3 transcription factor networks
0.1 1.0 PID IL5 PATHWAY IL5-mediated signaling events
0.0 6.6 NABA ECM AFFILIATED Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
0.0 1.1 ST GA12 PATHWAY G alpha 12 Pathway
0.0 1.8 PID CD8 TCR PATHWAY TCR signaling in naïve CD8+ T cells
0.0 6.8 NABA SECRETED FACTORS Genes encoding secreted soluble factors

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
2.8 47.9 REACTOME CHYLOMICRON MEDIATED LIPID TRANSPORT Genes involved in Chylomicron-mediated lipid transport
0.7 11.0 REACTOME IL 7 SIGNALING Genes involved in Interleukin-7 signaling
0.7 6.8 REACTOME GLYCOPROTEIN HORMONES Genes involved in Glycoprotein hormones
0.4 6.6 REACTOME HS GAG DEGRADATION Genes involved in HS-GAG degradation
0.4 5.0 REACTOME HYALURONAN UPTAKE AND DEGRADATION Genes involved in Hyaluronan uptake and degradation
0.3 9.0 REACTOME SMOOTH MUSCLE CONTRACTION Genes involved in Smooth Muscle Contraction
0.2 6.5 REACTOME REGULATION OF BETA CELL DEVELOPMENT Genes involved in Regulation of beta-cell development
0.1 1.8 REACTOME ELEVATION OF CYTOSOLIC CA2 LEVELS Genes involved in Elevation of cytosolic Ca2+ levels
0.1 1.1 REACTOME ERKS ARE INACTIVATED Genes involved in ERKs are inactivated
0.1 4.5 REACTOME GLYCOLYSIS Genes involved in Glycolysis
0.1 1.8 REACTOME PRE NOTCH TRANSCRIPTION AND TRANSLATION Genes involved in Pre-NOTCH Transcription and Translation
0.0 2.2 REACTOME ASPARAGINE N LINKED GLYCOSYLATION Genes involved in Asparagine N-linked glycosylation
0.0 1.0 REACTOME RESPIRATORY ELECTRON TRANSPORT Genes involved in Respiratory electron transport