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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Tbx4

Z-value: 0.71

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Transcription factors associated with Tbx4

Gene Symbol Gene ID Gene Info
Tbx4
ENSRNOG00000003544 T-box 4

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
Tbx4rn6_v1_chr10_+_73333119_73333119-0.091.2e-01Click!

Activity profile of Tbx4 motif

Sorted Z-values of Tbx4 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr2_+_174013288 43.04 ENSRNOT00000013904
Serpini1
serpin family I member 1
chr11_-_4397361 39.92 ENSRNOT00000046370
Cadm2
cell adhesion molecule 2
chr5_+_143500441 36.94 ENSRNOT00000045513
Grik3
glutamate ionotropic receptor kainate type subunit 3
chr4_-_52350624 33.30 ENSRNOT00000060476
Tmem229a
transmembrane protein 229A
chr2_+_74360622 33.06 ENSRNOT00000014013
Cdh18
cadherin 18
chr7_+_54980120 30.05 ENSRNOT00000005690
ENSRNOT00000005773
Kcnc2
potassium voltage-gated channel subfamily C member 2
chr11_-_59110562 26.48 ENSRNOT00000047907
ENSRNOT00000042024
Lsamp
limbic system-associated membrane protein
chr5_-_12563429 21.57 ENSRNOT00000059625
St18
suppression of tumorigenicity 18
chr7_+_77066955 21.46 ENSRNOT00000008700
Odf1
outer dense fiber of sperm tails 1
chr10_-_68926264 21.41 ENSRNOT00000008661
Phb-ps1
prohibitin, pseudogene 1
chr5_+_164808323 21.40 ENSRNOT00000011005
Nppa
natriuretic peptide A
chr9_+_81816872 18.09 ENSRNOT00000041407
Plcd4
phospholipase C, delta 4
chr9_-_61810417 17.77 ENSRNOT00000020910
Rftn2
raftlin family member 2
chr18_-_40134504 14.75 ENSRNOT00000022294
Trim36
tripartite motif-containing 36
chr1_-_165680176 14.62 ENSRNOT00000025245
ENSRNOT00000082697
Plekhb1
pleckstrin homology domain containing B1
chr3_+_131351587 14.19 ENSRNOT00000010835
Btbd3
BTB domain containing 3
chr4_+_71675383 13.67 ENSRNOT00000051265
Clcn1
chloride voltage-gated channel 1
chr5_+_136683592 13.11 ENSRNOT00000085527
Slc6a9
solute carrier family 6 member 9
chr18_+_46148849 11.25 ENSRNOT00000026724
Prr16
proline rich 16
chr14_+_12218553 10.84 ENSRNOT00000003237
Prkg2
protein kinase, cGMP-dependent, type II
chr1_+_187149453 9.17 ENSRNOT00000082738
Xylt1
xylosyltransferase 1
chr16_+_46731403 8.74 ENSRNOT00000017624
Tenm3
teneurin transmembrane protein 3
chr4_-_56114254 8.24 ENSRNOT00000010673
Lrrc4
leucine rich repeat containing 4
chrX_+_70563570 8.19 ENSRNOT00000003772
Gdpd2
glycerophosphodiester phosphodiesterase domain containing 2
chr4_-_83137527 7.66 ENSRNOT00000039580
Jazf1
JAZF zinc finger 1
chr4_+_174181644 7.10 ENSRNOT00000011555
Capza3
capping actin protein of muscle Z-line alpha subunit 3
chr6_-_50923510 7.07 ENSRNOT00000010631
Bcap29
B-cell receptor-associated protein 29
chr10_+_85608544 7.07 ENSRNOT00000092122
Mllt6
MLLT6, PHD finger domain containing
chr13_-_55878094 6.68 ENSRNOT00000014218
Lhx9
LIM homeobox 9
chr1_+_88542035 5.99 ENSRNOT00000032973
Zfp420
zinc finger protein 420
chr1_-_170471076 5.81 ENSRNOT00000025159
Arfip2
ADP-ribosylation factor interacting protein 2
chr16_+_32457521 5.44 ENSRNOT00000083579
Clcn3
chloride voltage-gated channel 3
chr3_+_100768637 5.33 ENSRNOT00000083542
Bdnf
brain-derived neurotrophic factor
chr18_+_53609214 5.26 ENSRNOT00000077443
Slc27a6
solute carrier family 27 member 6
chr9_-_63637677 5.25 ENSRNOT00000049259
Satb2
SATB homeobox 2
chr13_-_85443976 4.97 ENSRNOT00000005213
Uck2
uridine-cytidine kinase 2
chr1_+_85485289 4.91 ENSRNOT00000026182
Dll3
delta like canonical Notch ligand 3
chr9_-_15700235 4.79 ENSRNOT00000088713
ENSRNOT00000035907
Trerf1
transcriptional regulating factor 1
chr1_+_170471238 4.53 ENSRNOT00000076961
ENSRNOT00000075597
ENSRNOT00000076631
ENSRNOT00000076783
Timm10b
Dnhd1
translocase of inner mitochondrial membrane 10B
dynein heavy chain domain 1
chr9_-_49950093 4.22 ENSRNOT00000023014
Fhl2
four and a half LIM domains 2
chr5_+_24434872 4.14 ENSRNOT00000010696
Ccne2
cyclin E2
chr13_-_85443727 3.85 ENSRNOT00000090668
ENSRNOT00000076125
Uck2
uridine-cytidine kinase 2
chr1_-_143398093 2.55 ENSRNOT00000078916
Fsd2
fibronectin type III and SPRY domain containing 2
chr8_+_77640222 2.48 ENSRNOT00000079115
Aldh1a2
aldehyde dehydrogenase 1 family, member A2
chr1_-_22404002 2.47 ENSRNOT00000044098
Taar8a
trace amine-associated receptor 8a
chr9_+_47281961 2.24 ENSRNOT00000065234
Slc9a4
solute carrier family 9 member A4
chr12_+_52359310 1.80 ENSRNOT00000071857
ENSRNOT00000065893
Fbrsl1
fibrosin-like 1
chr1_+_185863043 1.77 ENSRNOT00000079072
Sox6
SRY box 6
chr20_+_2058197 1.72 ENSRNOT00000077774
ENSRNOT00000040634
RT1-M6-1
RT1 class I, locus M6, gene 1
chr4_-_100783016 1.57 ENSRNOT00000020671
Kcmf1
potassium channel modulatory factor 1
chr2_-_62634785 0.98 ENSRNOT00000017937
Pdzd2
PDZ domain containing 2
chr1_-_141533908 0.62 ENSRNOT00000020117
Mesp1
mesoderm posterior bHLH transcription factor 1
chr10_-_88645364 0.56 ENSRNOT00000030344
Rab5c
RAB5C, member RAS oncogene family
chr1_+_172822544 0.52 ENSRNOT00000090018
AABR07004960.1

chr15_+_8739589 0.48 ENSRNOT00000071751
Nr1d2
nuclear receptor subfamily 1, group D, member 2
chr1_-_172322795 0.25 ENSRNOT00000075318
RGD1562400
similar to olfactory receptor MOR204-14

Network of associatons between targets according to the STRING database.

First level regulatory network of Tbx4

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
7.1 21.4 GO:1902304 positive regulation of potassium ion export(GO:1902304)
5.0 30.1 GO:0021759 globus pallidus development(GO:0021759)
3.6 10.8 GO:2001226 negative regulation of chloride transport(GO:2001226)
3.4 36.9 GO:0007196 adenylate cyclase-inhibiting G-protein coupled glutamate receptor signaling pathway(GO:0007196)
3.0 17.8 GO:0033227 dsRNA transport(GO:0033227)
2.4 7.1 GO:2001160 regulation of histone H3-K79 methylation(GO:2001160)
2.2 6.7 GO:0035262 gonad morphogenesis(GO:0035262)
2.2 8.8 GO:0044211 CTP salvage(GO:0044211)
1.4 5.4 GO:0097401 synaptic vesicle lumen acidification(GO:0097401)
1.2 4.9 GO:0007386 compartment pattern specification(GO:0007386)
1.2 13.1 GO:0060012 synaptic transmission, glycinergic(GO:0060012)
1.2 7.1 GO:0070973 protein localization to endoplasmic reticulum exit site(GO:0070973)
1.1 26.5 GO:0035641 locomotory exploration behavior(GO:0035641)
1.1 13.7 GO:0098870 neuronal action potential propagation(GO:0019227) action potential propagation(GO:0098870)
0.8 8.2 GO:0097119 postsynaptic density protein 95 clustering(GO:0097119)
0.8 32.8 GO:0007340 acrosome reaction(GO:0007340)
0.8 8.7 GO:0097264 self proteolysis(GO:0097264)
0.8 9.2 GO:0030206 chondroitin sulfate biosynthetic process(GO:0030206)
0.7 8.2 GO:0090527 actin filament reorganization(GO:0090527)
0.7 5.3 GO:0061193 taste bud development(GO:0061193)
0.7 39.9 GO:0007157 heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules(GO:0007157)
0.5 2.5 GO:0035799 ureter maturation(GO:0035799)
0.5 5.2 GO:0021902 commitment of neuronal cell to specific neuron type in forebrain(GO:0021902)
0.5 11.3 GO:0045793 positive regulation of cell size(GO:0045793)
0.4 1.8 GO:0021780 oligodendrocyte cell fate specification(GO:0021778) oligodendrocyte cell fate commitment(GO:0021779) glial cell fate specification(GO:0021780)
0.3 5.8 GO:0034315 regulation of Arp2/3 complex-mediated actin nucleation(GO:0034315)
0.3 7.1 GO:0051016 barbed-end actin filament capping(GO:0051016)
0.3 4.2 GO:0060347 heart trabecula formation(GO:0060347)
0.3 33.1 GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules(GO:0007156)
0.2 0.6 GO:0060974 growth involved in heart morphogenesis(GO:0003241) cell migration involved in heart formation(GO:0060974) regulation of heart induction by regulation of canonical Wnt signaling pathway(GO:0090081)
0.2 2.2 GO:1990118 sodium ion import across plasma membrane(GO:0098719) sodium ion import into cell(GO:1990118)
0.2 43.0 GO:0010951 negative regulation of endopeptidase activity(GO:0010951)
0.1 4.1 GO:0006270 DNA replication initiation(GO:0006270)
0.1 14.2 GO:0021987 cerebral cortex development(GO:0021987)
0.1 0.6 GO:0048227 plasma membrane to endosome transport(GO:0048227)
0.1 5.3 GO:0015908 fatty acid transport(GO:0015908)
0.0 17.7 GO:0007283 spermatogenesis(GO:0007283)
0.0 1.7 GO:0002474 antigen processing and presentation of peptide antigen via MHC class I(GO:0002474)
0.0 0.5 GO:2000505 regulation of energy homeostasis(GO:2000505)
0.0 4.5 GO:0007018 microtubule-based movement(GO:0007018)
0.0 10.6 GO:0000122 negative regulation of transcription from RNA polymerase II promoter(GO:0000122)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
1.7 70.0 GO:0032809 neuronal cell body membrane(GO:0032809)
1.1 21.5 GO:0001520 outer dense fiber(GO:0001520)
1.1 36.9 GO:0032839 dendrite cytoplasm(GO:0032839)
0.9 4.5 GO:0042719 mitochondrial intermembrane space protein transporter complex(GO:0042719)
0.8 21.4 GO:0042629 mast cell granule(GO:0042629)
0.7 7.1 GO:0008290 F-actin capping protein complex(GO:0008290)
0.3 5.3 GO:0030061 mitochondrial crista(GO:0030061)
0.3 5.4 GO:0042581 specific granule(GO:0042581)
0.3 13.7 GO:0034707 chloride channel complex(GO:0034707)
0.2 26.5 GO:0031225 anchored component of membrane(GO:0031225)
0.2 5.8 GO:0032588 trans-Golgi network membrane(GO:0032588)
0.2 14.2 GO:0019005 SCF ubiquitin ligase complex(GO:0019005)
0.1 4.2 GO:0031430 M band(GO:0031430)
0.1 10.0 GO:0000118 histone deacetylase complex(GO:0000118)
0.1 7.7 GO:0017053 transcriptional repressor complex(GO:0017053)
0.1 14.7 GO:0001669 acrosomal vesicle(GO:0001669)
0.1 22.5 GO:0031965 nuclear membrane(GO:0031965)
0.1 8.2 GO:0005884 actin filament(GO:0005884)
0.0 17.8 GO:0098857 membrane raft(GO:0045121) membrane microdomain(GO:0098857)
0.0 8.2 GO:0043197 dendritic spine(GO:0043197)
0.0 13.1 GO:0098793 presynapse(GO:0098793)
0.0 35.1 GO:0005615 extracellular space(GO:0005615)
0.0 9.2 GO:0000139 Golgi membrane(GO:0000139)
0.0 88.4 GO:0016021 integral component of membrane(GO:0016021)
0.0 0.6 GO:0005811 lipid particle(GO:0005811)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
5.3 36.9 GO:0015277 kainate selective glutamate receptor activity(GO:0015277)
3.1 9.2 GO:0030158 protein xylosyltransferase activity(GO:0030158)
2.2 10.8 GO:0004690 cyclic nucleotide-dependent protein kinase activity(GO:0004690)
1.8 5.4 GO:0072320 volume-sensitive chloride channel activity(GO:0072320)
1.8 8.8 GO:0004849 uridine kinase activity(GO:0004849)
1.4 8.2 GO:0008889 glycerophosphodiester phosphodiesterase activity(GO:0008889)
1.3 30.1 GO:0005251 delayed rectifier potassium channel activity(GO:0005251)
1.0 13.1 GO:0005283 sodium:amino acid symporter activity(GO:0005283) glycine transmembrane transporter activity(GO:0015187)
0.9 21.4 GO:0051428 peptide hormone receptor binding(GO:0051428)
0.8 18.1 GO:0004435 phosphatidylinositol phospholipase C activity(GO:0004435)
0.8 13.7 GO:0005247 voltage-gated chloride channel activity(GO:0005247)
0.7 5.3 GO:0005169 neurotrophin TRKB receptor binding(GO:0005169)
0.5 5.3 GO:0031957 very long-chain fatty acid-CoA ligase activity(GO:0031957)
0.4 43.0 GO:0004867 serine-type endopeptidase inhibitor activity(GO:0004867)
0.2 2.2 GO:0015386 potassium:proton antiporter activity(GO:0015386)
0.2 4.9 GO:0005112 Notch binding(GO:0005112)
0.2 5.8 GO:0030742 GTP-dependent protein binding(GO:0030742)
0.2 2.5 GO:0016918 retinal binding(GO:0016918)
0.1 2.5 GO:0001594 trace-amine receptor activity(GO:0001594)
0.1 14.3 GO:0003714 transcription corepressor activity(GO:0003714)
0.1 39.9 GO:0050839 cell adhesion molecule binding(GO:0050839)
0.1 4.5 GO:0003777 microtubule motor activity(GO:0003777)
0.1 14.2 GO:0031625 ubiquitin protein ligase binding(GO:0031625)
0.0 33.1 GO:0005509 calcium ion binding(GO:0005509)
0.0 0.5 GO:0004887 thyroid hormone receptor activity(GO:0004887)
0.0 1.7 GO:0042605 peptide antigen binding(GO:0042605)
0.0 8.1 GO:0008022 protein C-terminus binding(GO:0008022)
0.0 41.3 GO:0008270 zinc ion binding(GO:0008270)
0.0 5.9 GO:0019887 protein kinase regulator activity(GO:0019887)
0.0 17.8 GO:0019904 protein domain specific binding(GO:0019904)
0.0 7.1 GO:0003779 actin binding(GO:0003779)
0.0 1.8 GO:0001078 transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001078)
0.0 0.6 GO:0035326 enhancer binding(GO:0035326)
0.0 4.8 GO:0008134 transcription factor binding(GO:0008134)
0.0 8.7 GO:0042803 protein homodimerization activity(GO:0042803)
0.0 0.6 GO:0019003 GDP binding(GO:0019003)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.4 39.1 PID MYC ACTIV PATHWAY Validated targets of C-MYC transcriptional activation
0.3 4.1 SA REG CASCADE OF CYCLIN EXPR Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases.
0.3 21.4 PID AP1 PATHWAY AP-1 transcription factor network
0.2 5.8 PID ARF 3PATHWAY Arf1 pathway
0.1 5.3 PID AJDISS 2PATHWAY Posttranslational regulation of adherens junction stability and dissassembly
0.1 4.2 PID AR PATHWAY Coregulation of Androgen receptor activity

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
2.6 73.0 REACTOME ADHERENS JUNCTIONS INTERACTIONS Genes involved in Adherens junctions interactions
2.3 36.9 REACTOME IONOTROPIC ACTIVITY OF KAINATE RECEPTORS Genes involved in Ionotropic activity of Kainate Receptors
1.2 10.8 REACTOME TETRAHYDROBIOPTERIN BH4 SYNTHESIS RECYCLING SALVAGE AND REGULATION Genes involved in Tetrahydrobiopterin (BH4) synthesis, recycling, salvage and regulation
0.8 21.4 REACTOME YAP1 AND WWTR1 TAZ STIMULATED GENE EXPRESSION Genes involved in YAP1- and WWTR1 (TAZ)-stimulated gene expression
0.6 30.1 REACTOME REGULATION OF INSULIN SECRETION BY GLUCAGON LIKE PEPTIDE1 Genes involved in Regulation of Insulin Secretion by Glucagon-like Peptide-1
0.6 13.1 REACTOME NA CL DEPENDENT NEUROTRANSMITTER TRANSPORTERS Genes involved in Na+/Cl- dependent neurotransmitter transporters
0.3 8.8 REACTOME PYRIMIDINE METABOLISM Genes involved in Pyrimidine metabolism
0.2 5.3 REACTOME TRANSPORT OF VITAMINS NUCLEOSIDES AND RELATED MOLECULES Genes involved in Transport of vitamins, nucleosides, and related molecules
0.1 4.1 REACTOME G0 AND EARLY G1 Genes involved in G0 and Early G1
0.1 14.7 REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION Genes involved in Antigen processing: Ubiquitination & Proteasome degradation
0.0 4.2 REACTOME PPARA ACTIVATES GENE EXPRESSION Genes involved in PPARA Activates Gene Expression
0.0 2.2 REACTOME TRANSPORT OF INORGANIC CATIONS ANIONS AND AMINO ACIDS OLIGOPEPTIDES Genes involved in Transport of inorganic cations/anions and amino acids/oligopeptides
0.0 0.6 REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS Genes involved in Golgi Associated Vesicle Biogenesis