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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Tbx3

Z-value: 0.56

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Transcription factors associated with Tbx3

Gene Symbol Gene ID Gene Info
Tbx3
ENSRNOG00000008706 T-box 3

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
Tbx3rn6_v1_chr12_-_42492526_424925260.091.0e-01Click!

Activity profile of Tbx3 motif

Sorted Z-values of Tbx3 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr9_-_80166807 23.75 ENSRNOT00000079493
Igfbp5
insulin-like growth factor binding protein 5
chr1_+_222310920 23.55 ENSRNOT00000091465
Macrod1
MACRO domain containing 1
chr9_-_80167033 23.22 ENSRNOT00000023530
Igfbp5
insulin-like growth factor binding protein 5
chr1_+_72882806 21.51 ENSRNOT00000024640
Tnni3
troponin I3, cardiac type
chr13_-_51297621 13.04 ENSRNOT00000030926
Ndufv3
NADH:ubiquinone oxidoreductase subunit V3
chr2_-_30748325 12.93 ENSRNOT00000084294
ENSRNOT00000083089
Mrps36
mitochondrial ribosomal protein S36
chr17_+_69468427 10.98 ENSRNOT00000058413
RGD1564865
similar to 20-alpha-hydroxysteroid dehydrogenase
chr4_+_30313102 10.77 ENSRNOT00000012657
Asb4
ankyrin repeat and SOCS box-containing 4
chr20_-_14193690 10.04 ENSRNOT00000058237
Upb1
beta-ureidopropionase 1
chr5_-_171710312 8.44 ENSRNOT00000076044
ENSRNOT00000071280
ENSRNOT00000072059
ENSRNOT00000077015
Prdm16
PR/SET domain 16
chr6_-_108076186 8.39 ENSRNOT00000014814
Fam161b
family with sequence similarity 161, member B
chr8_-_7426611 7.17 ENSRNOT00000031492
Arhgap42
Rho GTPase activating protein 42
chr6_+_108076306 6.73 ENSRNOT00000014913
Coq6
coenzyme Q6 monooxygenase
chr13_-_36290531 5.00 ENSRNOT00000071388
Steap3
STEAP3 metalloreductase
chr1_+_56288832 4.84 ENSRNOT00000079718
Smoc2
SPARC related modular calcium binding 2
chr20_+_37876650 4.83 ENSRNOT00000001054
Gja1
gap junction protein, alpha 1
chr3_-_120373500 4.65 ENSRNOT00000067727
Nphp1
nephrocystin 1
chr7_-_29701586 4.62 ENSRNOT00000009084
ENSRNOT00000089269
Ano4
anoctamin 4
chr1_+_185673177 4.52 ENSRNOT00000048020
Sox6
SRY box 6
chr3_-_146396299 3.29 ENSRNOT00000040188
ENSRNOT00000008931
Apmap
adipocyte plasma membrane associated protein
chr4_+_72292261 2.96 ENSRNOT00000078723
LOC103690255
olfactory receptor-like protein OLF3
chr1_-_188097530 2.85 ENSRNOT00000078825
Syt17
synaptotagmin 17
chr9_-_79530821 2.68 ENSRNOT00000085619
Mreg
melanoregulin
chr2_+_189922996 2.03 ENSRNOT00000016499
S100a16
S100 calcium binding protein A16
chr4_-_161658519 2.02 ENSRNOT00000007634
ENSRNOT00000067895
Tulp3
tubby-like protein 3
chr16_+_70644474 1.96 ENSRNOT00000045955
LOC100359503
ribosomal protein S28-like
chr17_+_38323674 1.23 ENSRNOT00000021982
Prl5a1
prolactin family 5, subfamily a, member 1
chr10_-_60772313 1.18 ENSRNOT00000050847
Olr1504
olfactory receptor 1504
chr7_-_70355619 1.16 ENSRNOT00000031272
Tspan31
tetraspanin 31
chr1_-_188097374 0.95 ENSRNOT00000092246
Syt17
synaptotagmin 17
chrX_+_97074710 0.71 ENSRNOT00000044379
RGD1561230
similar to RIKEN cDNA 4921511C20 gene
chr10_-_44256945 0.68 ENSRNOT00000003818
Olr1432
olfactory receptor 1432
chr3_+_122928964 0.66 ENSRNOT00000074724
LOC100365450
rCG26795-like
chr5_+_137255924 0.56 ENSRNOT00000088022
ENSRNOT00000092755
Elovl1
ELOVL fatty acid elongase 1
chr3_-_18244535 0.52 ENSRNOT00000040689
AABR07051626.1

chr2_+_188561429 0.39 ENSRNOT00000076458
ENSRNOT00000027867
Krtcap2
keratinocyte associated protein 2
chr3_-_149563476 0.26 ENSRNOT00000071869
AABR07054352.2

chr1_+_222746023 0.21 ENSRNOT00000028787
Atl3
atlastin GTPase 3
chr17_+_2690062 0.20 ENSRNOT00000024937
Olr1653
olfactory receptor 1653
chr2_+_4252496 0.20 ENSRNOT00000071535
RGD1560883
similar to KIAA0825 protein
chr19_+_10142496 0.18 ENSRNOT00000088645
ENSRNOT00000060351
Cngb1
cyclic nucleotide gated channel beta 1
chr8_-_130127392 0.14 ENSRNOT00000026159
Cck
cholecystokinin
chr17_-_42737000 0.08 ENSRNOT00000077923
Prl3a1
Prolactin family 3, subfamily a, member 1

Network of associatons between targets according to the STRING database.

First level regulatory network of Tbx3

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
11.7 47.0 GO:1904204 regulation of skeletal muscle hypertrophy(GO:1904204)
5.9 23.5 GO:0051725 protein de-ADP-ribosylation(GO:0051725)
2.5 10.0 GO:0019483 beta-alanine biosynthetic process(GO:0019483)
2.4 7.2 GO:1904694 negative regulation of vascular smooth muscle contraction(GO:1904694)
1.7 5.0 GO:1902167 positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator(GO:1902167)
1.6 4.8 GO:0010643 cell communication by chemical coupling(GO:0010643)
1.5 4.6 GO:1903348 positive regulation of bicellular tight junction assembly(GO:1903348)
1.4 21.5 GO:0032780 negative regulation of ATPase activity(GO:0032780)
0.9 8.4 GO:0090336 positive regulation of brown fat cell differentiation(GO:0090336)
0.9 4.6 GO:0061589 calcium activated phosphatidylserine scrambling(GO:0061589)
0.8 10.8 GO:2001214 positive regulation of vasculogenesis(GO:2001214)
0.8 4.5 GO:2000741 positive regulation of mesenchymal stem cell differentiation(GO:2000741)
0.4 6.7 GO:0006744 ubiquinone biosynthetic process(GO:0006744) quinone biosynthetic process(GO:1901663)
0.4 2.0 GO:0021914 negative regulation of smoothened signaling pathway involved in ventral spinal cord patterning(GO:0021914)
0.2 13.0 GO:0042775 mitochondrial ATP synthesis coupled electron transport(GO:0042775)
0.1 2.7 GO:0032401 establishment of melanosome localization(GO:0032401) melanosome transport(GO:0032402)
0.1 3.8 GO:1903861 positive regulation of dendrite extension(GO:1903861)
0.1 0.6 GO:0034625 fatty acid elongation, monounsaturated fatty acid(GO:0034625) long-chain fatty-acyl-CoA biosynthetic process(GO:0035338)
0.1 2.0 GO:0000028 ribosomal small subunit assembly(GO:0000028)
0.0 4.8 GO:0010811 positive regulation of cell-substrate adhesion(GO:0010811)
0.0 0.2 GO:0035845 photoreceptor cell outer segment organization(GO:0035845)
0.0 0.4 GO:0018195 peptidyl-arginine modification(GO:0018195)
0.0 0.1 GO:0051901 positive regulation of mitochondrial depolarization(GO:0051901)
0.0 2.0 GO:0051592 response to calcium ion(GO:0051592)
0.0 11.0 GO:0055114 oxidation-reduction process(GO:0055114)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
7.8 47.0 GO:0042567 insulin-like growth factor ternary complex(GO:0042567)
5.4 21.5 GO:1990584 cardiac Troponin complex(GO:1990584)
2.6 12.9 GO:0005947 mitochondrial alpha-ketoglutarate dehydrogenase complex(GO:0005947) oxoglutarate dehydrogenase complex(GO:0045252)
1.3 10.8 GO:0031466 Cul5-RING ubiquitin ligase complex(GO:0031466)
0.3 2.0 GO:0030991 intraciliary transport particle A(GO:0030991)
0.3 4.8 GO:0005614 interstitial matrix(GO:0005614)
0.3 13.0 GO:0005747 mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271)
0.3 4.8 GO:0005916 fascia adherens(GO:0005916)
0.2 8.4 GO:0016235 aggresome(GO:0016235)
0.1 4.6 GO:0097546 ciliary base(GO:0097546)
0.1 5.0 GO:0005771 multivesicular body(GO:0005771)
0.0 2.0 GO:0022627 cytosolic small ribosomal subunit(GO:0022627)
0.0 2.7 GO:0042470 melanosome(GO:0042470) pigment granule(GO:0048770)
0.0 0.4 GO:0008250 oligosaccharyltransferase complex(GO:0008250)
0.0 3.8 GO:0005802 trans-Golgi network(GO:0005802)
0.0 0.1 GO:0043203 axon hillock(GO:0043203)
0.0 0.2 GO:0017071 intracellular cyclic nucleotide activated cation channel complex(GO:0017071)
0.0 21.9 GO:0005739 mitochondrion(GO:0005739)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
5.4 21.5 GO:0030172 troponin C binding(GO:0030172)
5.2 47.0 GO:0031995 insulin-like growth factor II binding(GO:0031995)
1.2 5.0 GO:0000293 ferric-chelate reductase activity(GO:0000293)
1.0 4.8 GO:1903763 gap junction channel activity involved in cell communication by electrical coupling(GO:1903763)
0.5 23.5 GO:0019213 deacetylase activity(GO:0019213)
0.5 3.3 GO:0004064 arylesterase activity(GO:0004064)
0.3 6.7 GO:0071949 FAD binding(GO:0071949)
0.2 10.0 GO:0016811 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides(GO:0016811)
0.2 4.6 GO:0005229 intracellular calcium activated chloride channel activity(GO:0005229)
0.1 8.4 GO:0033613 activating transcription factor binding(GO:0033613)
0.1 0.6 GO:0009922 fatty acid elongase activity(GO:0009922) 3-oxo-arachidoyl-CoA synthase activity(GO:0102336) 3-oxo-cerotoyl-CoA synthase activity(GO:0102337) 3-oxo-lignoceronyl-CoA synthase activity(GO:0102338)
0.1 3.8 GO:0005544 calcium-dependent phospholipid binding(GO:0005544)
0.0 10.8 GO:0061630 ubiquitin protein ligase activity(GO:0061630)
0.0 4.5 GO:0001078 transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001078)
0.0 4.8 GO:0008201 heparin binding(GO:0008201)
0.0 7.2 GO:0005096 GTPase activator activity(GO:0005096)
0.0 0.2 GO:0005222 intracellular cAMP activated cation channel activity(GO:0005222)
0.0 11.0 GO:0016491 oxidoreductase activity(GO:0016491)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.2 51.8 NABA ECM GLYCOPROTEINS Genes encoding structural ECM glycoproteins
0.2 13.0 PID HNF3A PATHWAY FOXA1 transcription factor network
0.1 4.8 PID FRA PATHWAY Validated transcriptional targets of AP1 family members Fra1 and Fra2
0.0 5.0 PID P53 DOWNSTREAM PATHWAY Direct p53 effectors

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
2.2 47.0 REACTOME REGULATION OF INSULIN LIKE GROWTH FACTOR IGF ACTIVITY BY INSULIN LIKE GROWTH FACTOR BINDING PROTEINS IGFBPS Genes involved in Regulation of Insulin-like Growth Factor (IGF) Activity by Insulin-like Growth Factor Binding Proteins (IGFBPs)
0.8 10.0 REACTOME PYRIMIDINE CATABOLISM Genes involved in Pyrimidine catabolism
0.6 21.5 REACTOME STRIATED MUSCLE CONTRACTION Genes involved in Striated Muscle Contraction
0.5 4.8 REACTOME GAP JUNCTION DEGRADATION Genes involved in Gap junction degradation
0.2 13.0 REACTOME RESPIRATORY ELECTRON TRANSPORT Genes involved in Respiratory electron transport
0.2 5.0 REACTOME TRANSFERRIN ENDOCYTOSIS AND RECYCLING Genes involved in Transferrin endocytosis and recycling
0.0 10.8 REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION Genes involved in Antigen processing: Ubiquitination & Proteasome degradation
0.0 0.6 REACTOME SYNTHESIS OF VERY LONG CHAIN FATTY ACYL COAS Genes involved in Synthesis of very long-chain fatty acyl-CoAs