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PRJDB7713: Age associated transcriptome analysis in 5 tissues of zebrafish

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Results for nkx3-2+nkx3.3-2

Z-value: 0.49

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Transcription factors associated with nkx3-2+nkx3.3-2

Gene Symbol Gene ID Gene Info
ENSDARG00000037639 NK3 homeobox 2
ENSDARG00000069327 NK3 homeobox 3

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
nkx3.3dr11_v1_chr13_-_40401870_404018700.481.3e-06Click!
nkx3.2dr11_v1_chr14_-_215051_2150510.363.8e-04Click!

Activity profile of nkx3-2+nkx3.3-2 motif

Sorted Z-values of nkx3-2+nkx3.3-2 motif

Promoter Log-likelihood Transcript Gene Gene Info
chr1_+_1789357 5.21 ENSDART00000006449
ATPase Na+/K+ transporting subunit alpha 1a, tandem duplicate 2
chr16_+_26612401 3.30 ENSDART00000145571
erythrocyte membrane protein band 4.1 like 4B
chr17_+_6563307 2.49 ENSDART00000156454
adhesion G protein-coupled receptor F3a
chr19_+_19989380 2.47 ENSDART00000142841
oxysterol binding protein-like 3a
chr6_-_40038543 2.29 ENSDART00000154792
si:dkey-197j19.6
chr10_+_13209580 2.16 ENSDART00000000887
ENSDART00000136932
Ras association (RalGDS/AF-6) domain family 6
chr16_+_49005321 2.08 ENSDART00000160919

chr18_-_22094102 2.01 ENSDART00000100904
par-6 family cell polarity regulator alpha
chr5_-_26765188 1.79 ENSDART00000029450
ring finger protein 181
chr8_+_24281512 1.79 ENSDART00000062845
matrix metallopeptidase 9
chr4_+_19534833 1.72 ENSDART00000140028
leucine rich repeat containing 4.1
chr1_-_18803919 1.66 ENSDART00000020970
phosphoglucomutase 2
chr5_-_26764880 1.63 ENSDART00000140392
ENSDART00000134728
ring finger protein 181
chr22_+_19188809 1.62 ENSDART00000134791
ENSDART00000133682
si:dkey-21e2.8
chr2_+_42135719 1.45 ENSDART00000008268
cytochrome P450, family 7, subfamily B, polypeptide 1
chr11_+_14333441 1.41 ENSDART00000171969
polypyrimidine tract binding protein 1b
chr15_-_12319065 1.33 ENSDART00000162973
ENSDART00000170543
FXYD domain containing ion transport regulator 6
chr4_+_72668095 1.27 ENSDART00000182282
ENSDART00000162637

chr5_-_54300725 1.27 ENSDART00000163048
solute carrier family 25, member 35
chr8_+_25299069 1.25 ENSDART00000114676
glutathione S-transferase mu tandem duplicate 2
chr6_-_39198912 1.24 ENSDART00000077938
core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1b
chr15_+_15173611 1.22 ENSDART00000155267
si:ch211-149e23.4
chr19_-_31802296 1.21 ENSDART00000103640
hes-related family bHLH transcription factor with YRPW motif 1
chr15_-_36347858 1.03 ENSDART00000155274
ENSDART00000157936
si:dkey-23k10.2
chr18_-_29977431 1.01 ENSDART00000135357
si:ch211-220f16.2
chr9_-_9225980 1.01 ENSDART00000180301
cystathionine-beta-synthase b
chr3_-_53559581 0.97 ENSDART00000183499
notch 3
chr2_-_51644044 0.97 ENSDART00000157899
defender against cell death 1
chr15_-_35246742 0.96 ENSDART00000131479
mitochondrial fission factor
chr4_-_71436560 0.96 ENSDART00000166884
si:dkey-82i20.1
chr7_+_44715224 0.94 ENSDART00000184630
si:dkey-56m19.5
chr13_+_23093743 0.94 ENSDART00000148034
phosphoinositide-3-kinase adaptor protein 1
chr11_-_36474306 0.88 ENSDART00000170678
ENSDART00000123591
ubiquitin specific peptidase 48
chr12_-_23009312 0.87 ENSDART00000111801
mohawk homeobox a
chr22_+_2830703 0.85 ENSDART00000145463
ENSDART00000144785
si:dkey-20i20.8
chr21_-_2348838 0.81 ENSDART00000160337
si:ch73-299h12.8
chr15_+_888704 0.81 ENSDART00000182796
si:dkey-7i4.9
chr12_+_22580579 0.79 ENSDART00000171725
ENSDART00000192290
capping protein (actin filament), gelsolin-like b
chr1_-_51710225 0.79 ENSDART00000057601
ENSDART00000152745
small nuclear ribonucleoprotein polypeptide B2
chr5_-_42083363 0.78 ENSDART00000162596
chemokine (C-X-C motif) ligand 11, duplicate 5
chr10_-_29831944 0.77 ENSDART00000063923
ENSDART00000136264
ZPR1 zinc finger
chr16_+_28994709 0.77 ENSDART00000088023
gon-4-like (C. elegans)
chr8_-_17987547 0.74 ENSDART00000112699
ENSDART00000061747
fucose-1-phosphate guanylyltransferase
chr20_+_25568694 0.74 ENSDART00000063107
ENSDART00000063128
cytochrome P450, family 2, subfamily P, polypeptide 7
chr24_+_21676921 0.74 ENSDART00000066677
si:ch211-140b10.6
chr3_-_16413606 0.70 ENSDART00000127309
ENSDART00000017172
ENSDART00000136465
elongation factor Tu GTP binding domain containing 2
chr1_+_16621345 0.70 ENSDART00000149026
pericentriolar material 1
chr8_-_48847772 0.70 ENSDART00000122458
WD repeat containing, antisense to TP73
chr4_+_71018579 0.70 ENSDART00000186727
si:dkeyp-80d11.10
chr9_-_34882516 0.68 ENSDART00000011163
acetylserotonin O-methyltransferase-like
chr5_-_31716713 0.66 ENSDART00000131443
dolichyl-phosphate mannosyltransferase polypeptide 2, regulatory subunit
chr3_-_32603191 0.64 ENSDART00000150997
si:ch73-248e21.7
chr5_+_26765275 0.63 ENSDART00000144169
si:ch211-102c2.8
chr24_+_17005647 0.61 ENSDART00000149149
zinc finger protein, X-linked
chr13_+_15581270 0.60 ENSDART00000189880
ENSDART00000190067
ENSDART00000041293
MAP/microtubule affinity-regulating kinase 3a
chr18_-_38216584 0.59 ENSDART00000144622
si:dkey-10o6.2
chr7_-_52842007 0.59 ENSDART00000182710
microtubule-associated protein 1Aa
chr17_+_31742923 0.55 ENSDART00000086696
Rho GTPase activating protein 5
chr3_-_53559408 0.53 ENSDART00000073930
notch 3
chr2_+_39618951 0.52 ENSDART00000077108
zgc:136870
chr3_-_16039619 0.51 ENSDART00000143324
splA/ryanodine receptor domain and SOCS box containing 3a
chr7_+_39688208 0.50 ENSDART00000189682
TBC1 domain family, member 14
chr8_+_25254435 0.49 ENSDART00000143554
adenosine monophosphate deaminase 2b
chr2_-_55797318 0.49 ENSDART00000158147
calreticulin 3b
chr1_-_48933 0.49 ENSDART00000171162
immunoglobulin-like domain containing receptor 1a
chr18_-_26781616 0.48 ENSDART00000136776
ENSDART00000076484
KTI12 chromatin associated homolog
chr4_+_17327704 0.46 ENSDART00000016075
ENSDART00000133160
nucleoporin 37
chr16_-_13623928 0.44 ENSDART00000164344
si:dkeyp-69b9.6
chr8_+_20455134 0.43 ENSDART00000079618
REX1, RNA exonuclease 1 homolog
chr15_-_31027112 0.40 ENSDART00000100185
lectin, galactoside-binding, soluble, 9 (galectin 9)-like 4
chr4_+_71382288 0.39 ENSDART00000181926
si:ch211-76m11.8
chr7_+_20917966 0.39 ENSDART00000129161
WD repeat containing, antisense to TP53
chr4_-_13931508 0.38 ENSDART00000067174
zinc finger CCHC-type and RNA binding motif 1
chr16_-_31933740 0.37 ENSDART00000125411
si:ch1073-90m23.1
chr2_+_42177113 0.35 ENSDART00000056441
transmembrane protein with EGF-like and two follistatin-like domains 1a
chr11_-_5953636 0.35 ENSDART00000140960
ENSDART00000123601
DET1 and DDB1 associated 1
chr23_+_12840080 0.34 ENSDART00000081016
ENSDART00000121697
structural maintenance of chromosomes 1A, like
chr21_-_11791909 0.34 ENSDART00000180893
si:dkey-6b12.5
chr1_-_14258409 0.34 ENSDART00000079359
phosphodiesterase 5A, cGMP-specific, a
chr18_+_22174630 0.30 ENSDART00000089549
RHO family interacting cell polarization regulator 1
chr14_-_21219659 0.29 ENSDART00000089867
protein phosphatase 2, regulatory subunit B, gamma b
chr15_+_5360407 0.29 ENSDART00000110420
odorant receptor, family A, subfamily 112, member 1
chr12_+_17754859 0.27 ENSDART00000112119
basic helix-loop-helix family, member a15
chr21_+_34814444 0.26 ENSDART00000161816
WD repeat domain 55
chr5_-_68779747 0.25 ENSDART00000192636
ENSDART00000188039
methylphosphate capping enzyme
chr20_-_3086515 0.23 ENSDART00000046641
mitogen-activated protein kinase kinase kinase 5
chr24_-_31223232 0.23 ENSDART00000164155
ALG14, UDP-N-acetylglucosaminyltransferase subunit
chr3_-_18384501 0.23 ENSDART00000027630
KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 2a
chr8_+_28547687 0.22 ENSDART00000110291
sulfiredoxin 1 homolog (S. cerevisiae)
chr2_-_59157790 0.22 ENSDART00000192303
ENSDART00000159362
finTRIM family, member 32
chr14_-_26392475 0.20 ENSDART00000170614
xylosylprotein beta 1,4-galactosyltransferase, polypeptide 7 (galactosyltransferase I)
chr4_-_75812937 0.16 ENSDART00000125096
si:ch211-203c5.3
chr6_-_10168822 0.16 ENSDART00000151016
UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 1a
chr19_-_3777217 0.15 ENSDART00000160510
si:dkey-206d17.15
chr1_+_7988052 0.13 ENSDART00000167552

chr22_+_18389271 0.12 ENSDART00000088270
YjeF N-terminal domain containing 3
chr1_-_28860732 0.11 ENSDART00000177588
translocase of inner mitochondrial membrane domain containing 1
chr12_+_13404784 0.11 ENSDART00000167977
potassium voltage-gated channel, subfamily H (eag-related), member 4b
chr11_-_1948784 0.11 ENSDART00000082475
nuclear receptor subfamily 1, group D, member 4b
chr25_+_19670273 0.10 ENSDART00000073472
zgc:113426
chr22_+_9431853 0.09 ENSDART00000181028
si:ch211-11p18.6
chr16_-_16522013 0.08 ENSDART00000160602
neurobeachin-like 2
chr1_-_28861226 0.06 ENSDART00000075502
translocase of inner mitochondrial membrane domain containing 1
chr21_-_38031038 0.04 ENSDART00000179483
ENSDART00000076238
RNA binding motif protein 41
chr25_+_16356083 0.02 ENSDART00000125925
ENSDART00000125444
TEA domain family member 1a
chr22_+_9922301 0.00 ENSDART00000105924
bloody fingers

Network of associatons between targets according to the STRING database.

First level regulatory network of nkx3-2+nkx3.3-2

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
0.6 1.8 GO:0002544 granuloma formation(GO:0002432) chronic inflammatory response(GO:0002544) regulation of granuloma formation(GO:0002631) regulation of chronic inflammatory response(GO:0002676)
0.5 1.5 GO:0035019 somatic stem cell population maintenance(GO:0035019) symmetric cell division(GO:0098725)
0.3 1.0 GO:0031335 regulation of sulfur amino acid metabolic process(GO:0031335) regulation of homocysteine metabolic process(GO:0050666)
0.3 5.2 GO:0071436 cellular potassium ion homeostasis(GO:0030007) sodium ion export from cell(GO:0036376) sodium ion export(GO:0071436)
0.2 1.4 GO:0006699 bile acid biosynthetic process(GO:0006699) bile acid metabolic process(GO:0008206)
0.2 2.3 GO:0051127 positive regulation of actin nucleation(GO:0051127) positive regulation of Arp2/3 complex-mediated actin nucleation(GO:2000601)
0.1 0.7 GO:0034454 microtubule anchoring at centrosome(GO:0034454)
0.1 0.7 GO:0019348 dolichol metabolic process(GO:0019348)
0.1 0.2 GO:1904871 positive regulation of protein localization to nucleus(GO:1900182) regulation of protein localization to Cajal body(GO:1904869) positive regulation of protein localization to Cajal body(GO:1904871)
0.1 0.4 GO:2000561 negative regulation of interferon-gamma production(GO:0032689) CD4-positive, alpha-beta T cell proliferation(GO:0035739) regulation of CD4-positive, alpha-beta T cell proliferation(GO:2000561) negative regulation of CD4-positive, alpha-beta T cell proliferation(GO:2000562)
0.1 0.4 GO:0030576 nuclear body organization(GO:0030575) Cajal body organization(GO:0030576)
0.1 0.3 GO:0060465 pharynx development(GO:0060465)
0.0 0.9 GO:0045445 myoblast differentiation(GO:0045445)
0.0 0.7 GO:0072698 protein localization to microtubule cytoskeleton(GO:0072698)
0.0 2.0 GO:0001841 neural tube formation(GO:0001841)
0.0 0.5 GO:0032264 IMP salvage(GO:0032264)
0.0 0.2 GO:0006621 protein retention in ER lumen(GO:0006621)
0.0 0.5 GO:2000785 regulation of autophagosome assembly(GO:2000785)
0.0 1.2 GO:0006749 glutathione metabolic process(GO:0006749)
0.0 0.3 GO:0070262 peptidyl-serine dephosphorylation(GO:0070262)
0.0 0.1 GO:0010874 regulation of cholesterol efflux(GO:0010874)
0.0 1.3 GO:2000649 regulation of sodium ion transmembrane transporter activity(GO:2000649)
0.0 0.8 GO:0051014 actin filament severing(GO:0051014)
0.0 0.2 GO:0006488 dolichol-linked oligosaccharide biosynthetic process(GO:0006488)
0.0 0.6 GO:0031114 regulation of microtubule depolymerization(GO:0031114)
0.0 0.5 GO:0002098 tRNA wobble uridine modification(GO:0002098)
0.0 0.8 GO:0071222 cellular response to molecule of bacterial origin(GO:0071219) cellular response to lipopolysaccharide(GO:0071222)
0.0 0.1 GO:0036344 platelet formation(GO:0030220) platelet morphogenesis(GO:0036344)
0.0 0.6 GO:0007157 heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules(GO:0007157)
0.0 1.7 GO:0006006 glucose metabolic process(GO:0006006)
0.0 0.2 GO:0000186 activation of MAPKK activity(GO:0000186)
0.0 0.7 GO:0042737 drug metabolic process(GO:0017144) drug catabolic process(GO:0042737) exogenous drug catabolic process(GO:0042738)
0.0 0.3 GO:0007064 mitotic sister chromatid cohesion(GO:0007064)
0.0 0.2 GO:0030311 poly-N-acetyllactosamine metabolic process(GO:0030309) poly-N-acetyllactosamine biosynthetic process(GO:0030311)
0.0 1.0 GO:0006487 protein N-linked glycosylation(GO:0006487)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.2 0.7 GO:0033185 dolichol-phosphate-mannose synthase complex(GO:0033185)
0.2 2.5 GO:0097038 perinuclear endoplasmic reticulum(GO:0097038)
0.1 1.0 GO:0008250 oligosaccharyltransferase complex(GO:0008250)
0.1 0.7 GO:0034451 centriolar satellite(GO:0034451)
0.1 0.7 GO:0071007 U2-type catalytic step 2 spliceosome(GO:0071007)
0.0 0.5 GO:0033588 Elongator holoenzyme complex(GO:0033588)
0.0 0.5 GO:0031080 nuclear pore outer ring(GO:0031080)
0.0 0.8 GO:0005685 U1 snRNP(GO:0005685)
0.0 0.3 GO:0030893 meiotic cohesin complex(GO:0030893)
0.0 0.4 GO:0005689 U12-type spliceosomal complex(GO:0005689)
0.0 0.4 GO:0015030 Cajal body(GO:0015030)
0.0 2.0 GO:0070160 bicellular tight junction(GO:0005923) occluding junction(GO:0070160)
0.0 0.2 GO:0030663 COPI-coated vesicle membrane(GO:0030663)
0.0 0.4 GO:0080008 Cul4-RING E3 ubiquitin ligase complex(GO:0080008)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.5 5.2 GO:0005391 sodium:potassium-exchanging ATPase activity(GO:0005391)
0.2 0.7 GO:0030623 U5 snRNA binding(GO:0030623)
0.2 1.0 GO:0004122 cystathionine beta-synthase activity(GO:0004122)
0.1 1.7 GO:0016868 intramolecular transferase activity, phosphotransferases(GO:0016868)
0.1 0.7 GO:0047429 nucleoside-triphosphate diphosphatase activity(GO:0047429)
0.1 0.8 GO:0030619 U1 snRNA binding(GO:0030619)
0.1 2.0 GO:0005080 protein kinase C binding(GO:0005080)
0.1 2.5 GO:0015248 sterol transporter activity(GO:0015248)
0.1 0.2 GO:0046923 ER retention sequence binding(GO:0046923)
0.1 0.9 GO:0036312 phosphatidylinositol 3-kinase regulatory subunit binding(GO:0036312)
0.1 0.8 GO:0045236 CXCR chemokine receptor binding(GO:0045236)
0.1 1.5 GO:0005112 Notch binding(GO:0005112)
0.0 1.3 GO:0017080 sodium channel regulator activity(GO:0017080)
0.0 0.5 GO:0003876 AMP deaminase activity(GO:0003876) adenosine-phosphate deaminase activity(GO:0047623)
0.0 0.4 GO:0016936 galactoside binding(GO:0016936)
0.0 1.2 GO:0004364 glutathione transferase activity(GO:0004364)
0.0 2.2 GO:0008395 steroid hydroxylase activity(GO:0008395)
0.0 0.6 GO:0050321 tau-protein kinase activity(GO:0050321)
0.0 0.3 GO:0047555 3',5'-cyclic-GMP phosphodiesterase activity(GO:0047555)
0.0 0.2 GO:0035250 UDP-galactosyltransferase activity(GO:0035250)
0.0 0.2 GO:0008532 N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity(GO:0008532)
0.0 0.3 GO:0017069 snRNA binding(GO:0017069)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 2.0 PID RHOA PATHWAY RhoA signaling pathway
0.1 1.8 PID AVB3 OPN PATHWAY Osteopontin-mediated events
0.0 1.5 PID NOTCH PATHWAY Notch signaling pathway
0.0 1.2 PID HES HEY PATHWAY Notch-mediated HES/HEY network
0.0 0.9 PID BCR 5PATHWAY BCR signaling pathway
0.0 0.5 PID RHOA REG PATHWAY Regulation of RhoA activity
0.0 0.2 PID P38 MKK3 6PATHWAY p38 MAPK signaling pathway

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.4 2.0 REACTOME TGF BETA RECEPTOR SIGNALING IN EMT EPITHELIAL TO MESENCHYMAL TRANSITION Genes involved in TGF-beta receptor signaling in EMT (epithelial to mesenchymal transition)
0.3 1.8 REACTOME DEGRADATION OF THE EXTRACELLULAR MATRIX Genes involved in Degradation of the extracellular matrix
0.3 1.5 REACTOME RECEPTOR LIGAND BINDING INITIATES THE SECOND PROTEOLYTIC CLEAVAGE OF NOTCH RECEPTOR Genes involved in Receptor-ligand binding initiates the second proteolytic cleavage of Notch receptor
0.2 1.4 REACTOME ENDOGENOUS STEROLS Genes involved in Endogenous sterols
0.1 1.7 REACTOME GLYCOGEN BREAKDOWN GLYCOGENOLYSIS Genes involved in Glycogen breakdown (glycogenolysis)
0.0 0.7 REACTOME SYNTHESIS OF SUBSTRATES IN N GLYCAN BIOSYTHESIS Genes involved in Synthesis of substrates in N-glycan biosythesis
0.0 0.9 REACTOME ANTIGEN ACTIVATES B CELL RECEPTOR LEADING TO GENERATION OF SECOND MESSENGERS Genes involved in Antigen Activates B Cell Receptor Leading to Generation of Second Messengers
0.0 0.7 REACTOME MRNA SPLICING MINOR PATHWAY Genes involved in mRNA Splicing - Minor Pathway
0.0 0.7 REACTOME NOTCH1 INTRACELLULAR DOMAIN REGULATES TRANSCRIPTION Genes involved in NOTCH1 Intracellular Domain Regulates Transcription
0.0 0.7 REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES Genes involved in Loss of Nlp from mitotic centrosomes
0.0 0.2 REACTOME BIOSYNTHESIS OF THE N GLYCAN PRECURSOR DOLICHOL LIPID LINKED OLIGOSACCHARIDE LLO AND TRANSFER TO A NASCENT PROTEIN Genes involved in Biosynthesis of the N-glycan precursor (dolichol lipid-linked oligosaccharide, LLO) and transfer to a nascent protein
0.0 0.5 REACTOME TRANSPORT OF RIBONUCLEOPROTEINS INTO THE HOST NUCLEUS Genes involved in Transport of Ribonucleoproteins into the Host Nucleus
0.0 1.0 REACTOME ASPARAGINE N LINKED GLYCOSYLATION Genes involved in Asparagine N-linked glycosylation
0.0 0.4 REACTOME EXTENSION OF TELOMERES Genes involved in Extension of Telomeres