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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for runx3

Z-value: 0.41

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Transcription factors associated with runx3

Gene Symbol Gene ID Gene Info
runx3
ENSDARG00000052826 RUNX family transcription factor 3

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
runx3dr11_v1_chr13_-_45123051_451230510.924.1e-08Click!

Activity profile of runx3 motif

Sorted Z-values of runx3 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr11_+_2642013 0.59 ENSDART00000111324
zgc:193807
zgc:193807
chr7_+_24888910 0.52 ENSDART00000173994
mark2b
MAP/microtubule affinity-regulating kinase 2b
chr22_-_25469751 0.52 ENSDART00000171670
CR769772.4

chr18_+_35173859 0.52 ENSDART00000127379
ENSDART00000098292
cfap45
cilia and flagella associated protein 45
chr18_+_35173683 0.50 ENSDART00000192545
cfap45
cilia and flagella associated protein 45
chr20_-_43346049 0.50 ENSDART00000152888
afdna
afadin, adherens junction formation factor a
chr22_-_25502977 0.48 ENSDART00000181749
CR769772.4

chr19_-_5380770 0.46 ENSDART00000000221
krt91
keratin 91
chr16_+_23431189 0.43 ENSDART00000004679
icn
ictacalcin
chr16_+_41060161 0.38 ENSDART00000141130
scap
SREBF chaperone
chr5_+_24059598 0.36 ENSDART00000051547
gabarapa
GABA(A) receptor-associated protein a
chr11_-_30636163 0.35 ENSDART00000140516
zgc:153665
zgc:153665
chr11_-_8208464 0.35 ENSDART00000161283
pimr203
Pim proto-oncogene, serine/threonine kinase, related 203
chr6_+_44163727 0.35 ENSDART00000064878
gxylt2
glucoside xylosyltransferase 2
chr3_-_3372259 0.34 ENSDART00000140482
si:dkey-46g23.1
si:dkey-46g23.1
chr21_+_11923701 0.33 ENSDART00000109292
ubap2a
ubiquitin associated protein 2a
chr17_+_7522777 0.32 ENSDART00000184723
klhl10b.2
kelch-like family member 10b, tandem duplicate 2
chr15_-_2657508 0.30 ENSDART00000102086
cldna
claudin a
chr23_+_20795781 0.29 ENSDART00000128577
ttc34
tetratricopeptide repeat domain 34
chr24_+_24064562 0.28 ENSDART00000144394
zgc:112408
zgc:112408
chr16_+_28754403 0.25 ENSDART00000103340
s100v1
S100 calcium binding protein V1
chr25_-_10503043 0.25 ENSDART00000155404
cox8b
cytochrome c oxidase subunit 8b
chr20_-_34670236 0.24 ENSDART00000033325
slc25a24
solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 24
chr7_+_41160225 0.23 ENSDART00000074212
ENSDART00000164200
ENSDART00000174204
ENSDART00000174212
scrib
scribbled planar cell polarity protein
chr2_+_49864219 0.22 ENSDART00000187744
rpl37
ribosomal protein L37
chr1_+_54911458 0.22 ENSDART00000089603
golga7ba
golgin A7 family, member Ba
chr20_-_14012859 0.21 ENSDART00000152429
si:ch211-22i13.2
si:ch211-22i13.2
chr3_-_49382896 0.21 ENSDART00000169115
si:ch73-167f10.1
si:ch73-167f10.1
chr1_+_46598764 0.21 ENSDART00000053240
cab39l
calcium binding protein 39-like
chr1_+_53321878 0.21 ENSDART00000143909
tbc1d9
TBC1 domain family, member 9 (with GRAM domain)
chr9_-_20372977 0.20 ENSDART00000113418
igsf3
immunoglobulin superfamily, member 3
chr7_+_25858380 0.20 ENSDART00000148780
ENSDART00000079218
mtmr1a
myotubularin related protein 1a
chr14_-_42231293 0.19 ENSDART00000185486
BX890543.1

chr5_+_7989210 0.19 ENSDART00000168071
gdnfb
glial cell derived neurotrophic factor b
chr19_-_72398 0.19 ENSDART00000165587
dnajc8
DnaJ (Hsp40) homolog, subfamily C, member 8
chr15_-_31067589 0.18 ENSDART00000060157
lgals9l3
lectin, galactoside-binding, soluble, 9 (galectin 9)-like 3
chr2_-_183992 0.18 ENSDART00000126704
ENSDART00000191283
ENSDART00000034783
zgc:113518
zgc:113518
chr19_+_2546775 0.17 ENSDART00000148527
ENSDART00000097528
sp4
sp4 transcription factor
chr16_+_50089417 0.17 ENSDART00000153675
nr1d2a
nuclear receptor subfamily 1, group D, member 2a
chr20_-_2725930 0.17 ENSDART00000081643
akirin2
akirin 2
chr22_-_14161309 0.16 ENSDART00000133365
si:ch211-246m6.5
si:ch211-246m6.5
chr18_-_50524017 0.16 ENSDART00000150013
ENSDART00000149912
cd276
CD276 molecule
chr18_-_50523399 0.15 ENSDART00000033591
cd276
CD276 molecule
chr2_+_4146606 0.15 ENSDART00000171170
mib1
mindbomb E3 ubiquitin protein ligase 1
chr18_-_7810214 0.15 ENSDART00000139505
ENSDART00000139188
shank3a
SH3 and multiple ankyrin repeat domains 3a
chr25_-_225964 0.15 ENSDART00000193424
CABZ01113818.1

chr25_-_21894317 0.14 ENSDART00000089642
fbxo31
F-box protein 31
chr15_-_20468302 0.13 ENSDART00000018514
dlc
deltaC
chr7_+_17937922 0.13 ENSDART00000147189
mta2
metastasis associated 1 family, member 2
chr2_+_16173999 0.13 ENSDART00000177639
ENSDART00000157601
ENSDART00000190186
ENSDART00000045933
sh3glb1b
SH3-domain GRB2-like endophilin B1b
chr5_-_10239079 0.13 ENSDART00000132739
si:ch73-42k18.1
si:ch73-42k18.1
chr22_+_9922301 0.12 ENSDART00000105924
blf
bloody fingers
chr7_+_17938128 0.12 ENSDART00000141044
mta2
metastasis associated 1 family, member 2
chr16_-_54907588 0.12 ENSDART00000185709
kdf1a
keratinocyte differentiation factor 1a
chr22_+_11520249 0.11 ENSDART00000063147
sgsh
N-sulfoglucosamine sulfohydrolase (sulfamidase)
chr22_-_30973791 0.11 ENSDART00000104728
ssuh2.2
ssu-2 homolog, tandem duplicate 2
chr8_-_18899427 0.10 ENSDART00000079840
rorca
RAR-related orphan receptor C a
chr13_+_45524475 0.09 ENSDART00000074567
ENSDART00000019113
maco1b
macoilin 1b
chr11_+_30636351 0.09 ENSDART00000087909
tmem246
transmembrane protein 246
chr24_-_21507627 0.09 ENSDART00000170984
rnf6
ring finger protein (C3H2C3 type) 6
chr15_-_37589600 0.07 ENSDART00000154641
proser3
proline and serine rich 3
chr16_+_4133519 0.07 ENSDART00000174521
ENSDART00000175718
mtf1
metal-regulatory transcription factor 1
chr2_-_52841762 0.07 ENSDART00000114682
ralbp1
ralA binding protein 1
chr2_+_53114476 0.07 ENSDART00000080850
ENSDART00000104187
CR384061.1

chr6_-_2154137 0.07 ENSDART00000162656
tgm5l
transglutaminase 5, like
chr15_-_22139566 0.07 ENSDART00000149017
scn3b
sodium channel, voltage-gated, type III, beta
chr20_-_48485354 0.06 ENSDART00000124040
ENSDART00000148437
insm1a
insulinoma-associated 1a
chr20_+_10723292 0.06 ENSDART00000152805
si:ch211-182e10.4
si:ch211-182e10.4
chr6_-_141564 0.06 ENSDART00000151245
ENSDART00000063876
s1pr5b
sphingosine-1-phosphate receptor 5b
chr1_-_18446161 0.06 ENSDART00000089442
klhl5
kelch-like family member 5
chr6_+_39930825 0.05 ENSDART00000182352
ENSDART00000186643
ENSDART00000190513
ENSDART00000065092
ENSDART00000188645
itpr1a
inositol 1,4,5-trisphosphate receptor, type 1a
chr20_-_53321499 0.05 ENSDART00000179894
ENSDART00000127427
ENSDART00000084952
wasf1
WAS protein family, member 1
chr25_-_210730 0.05 ENSDART00000187580
FP236318.1

chr2_-_7246848 0.05 ENSDART00000146434
zgc:153115
zgc:153115
chr24_-_18659147 0.05 ENSDART00000166039
zgc:66014
zgc:66014
chr11_-_40519886 0.05 ENSDART00000172819
miip
migration and invasion inhibitory protein
chr19_-_24443867 0.04 ENSDART00000163763
ENSDART00000043133
thbs3b
thrombospondin 3b
chr22_-_392224 0.04 ENSDART00000124720
CABZ01072989.1

chr6_-_9581949 0.04 ENSDART00000144335
cyp27c1
cytochrome P450, family 27, subfamily C, polypeptide 1
chr7_-_65492048 0.03 ENSDART00000162381
dkk3a
dickkopf WNT signaling pathway inhibitor 3a
chr10_+_45148167 0.03 ENSDART00000172621
ogdhb
oxoglutarate (alpha-ketoglutarate) dehydrogenase b (lipoamide)
chr8_+_24861264 0.03 ENSDART00000099607
slc6a17
solute carrier family 6 (neutral amino acid transporter), member 17
chr20_+_44498056 0.02 ENSDART00000023763
wdcp
WD repeat and coiled coil containing
chr21_+_15824182 0.02 ENSDART00000065779
gnrh2
gonadotropin-releasing hormone 2
chr7_+_73308566 0.02 ENSDART00000187039
ENSDART00000174244
CABZ01081777.1

chr22_+_10757848 0.01 ENSDART00000145551
tmprss9
transmembrane protease, serine 9
chr1_-_8012476 0.01 ENSDART00000177051
CR855320.3

chr22_+_18497759 0.01 ENSDART00000188973
BX649279.1

chr19_+_42219165 0.01 ENSDART00000163192
CU896644.1

chr10_+_45148005 0.01 ENSDART00000182501
ogdhb
oxoglutarate (alpha-ketoglutarate) dehydrogenase b (lipoamide)
chr21_-_43992027 0.01 ENSDART00000188612
cdx1b
caudal type homeobox 1 b
chr17_+_37310663 0.00 ENSDART00000157122
elmsan1b
ELM2 and Myb/SANT-like domain containing 1b
chr22_+_11144153 0.00 ENSDART00000047442
bcor
BCL6 corepressor
chr24_-_27423697 0.00 ENSDART00000132590
si:dkey-25o1.7
si:dkey-25o1.7
chr6_+_38896158 0.00 ENSDART00000029930
ENSDART00000131347
slc48a1b
solute carrier family 48 (heme transporter), member 1b

Network of associatons between targets according to the STRING database.

First level regulatory network of runx3

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
0.1 0.2 GO:0061213 regulation of morphogenesis of a branching structure(GO:0060688) positive regulation of mesonephros development(GO:0061213) regulation of mesonephros development(GO:0061217) regulation of kidney development(GO:0090183) positive regulation of kidney development(GO:0090184) regulation of branching involved in ureteric bud morphogenesis(GO:0090189) positive regulation of branching involved in ureteric bud morphogenesis(GO:0090190)
0.1 0.2 GO:0021527 optic cup formation involved in camera-type eye development(GO:0003408) spinal cord association neuron specification(GO:0021519) spinal cord association neuron differentiation(GO:0021527)
0.0 0.3 GO:0016266 O-glycan processing(GO:0016266)
0.0 0.2 GO:1902946 protein localization to early endosome(GO:1902946)
0.0 0.2 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)
0.0 0.4 GO:0071501 response to sterol depletion(GO:0006991) SREBP signaling pathway(GO:0032933) cellular response to sterol depletion(GO:0071501)
0.0 0.1 GO:0031571 mitotic G1 DNA damage checkpoint(GO:0031571)
0.0 0.1 GO:0010481 epidermal cell division(GO:0010481) regulation of epidermal cell division(GO:0010482)
0.0 0.2 GO:0097107 postsynaptic density assembly(GO:0097107) modulation of excitatory postsynaptic potential(GO:0098815) positive regulation of excitatory postsynaptic potential(GO:2000463)
0.0 0.3 GO:0040033 miRNA mediated inhibition of translation(GO:0035278) negative regulation of translation, ncRNA-mediated(GO:0040033) regulation of translation, ncRNA-mediated(GO:0045974)
0.0 0.4 GO:0006995 cellular response to nitrogen starvation(GO:0006995) cellular response to nitrogen levels(GO:0043562)
0.0 0.1 GO:0060842 arterial endothelial cell differentiation(GO:0060842)
0.0 0.1 GO:0023041 neuronal signal transduction(GO:0023041)
0.0 0.1 GO:0071276 cellular response to cadmium ion(GO:0071276)
0.0 0.1 GO:0086005 ventricular cardiac muscle cell action potential(GO:0086005)
0.0 0.2 GO:0033617 mitochondrial respiratory chain complex IV assembly(GO:0033617) mitochondrial respiratory chain complex IV biogenesis(GO:0097034)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.2 GO:0002178 palmitoyltransferase complex(GO:0002178)
0.0 0.3 GO:0090545 NuRD complex(GO:0016581) CHD-type complex(GO:0090545)
0.0 0.4 GO:0012507 ER to Golgi transport vesicle membrane(GO:0012507)
0.0 0.2 GO:0045277 respiratory chain complex IV(GO:0045277)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.3 GO:0035252 UDP-xylosyltransferase activity(GO:0035252)
0.0 0.2 GO:0030116 glial cell-derived neurotrophic factor receptor binding(GO:0030116)
0.0 0.7 GO:0048306 calcium-dependent protein binding(GO:0048306)
0.0 0.5 GO:0050321 tau-protein kinase activity(GO:0050321)
0.0 0.2 GO:0030160 GKAP/Homer scaffold activity(GO:0030160)
0.0 0.2 GO:0052629 phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity(GO:0052629)
0.0 0.2 GO:0016936 galactoside binding(GO:0016936)
0.0 0.4 GO:0050811 GABA receptor binding(GO:0050811)
0.0 0.1 GO:0030332 cyclin binding(GO:0030332)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.4 SA CASPASE CASCADE Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade.

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.2 REACTOME REGULATION OF AMPK ACTIVITY VIA LKB1 Genes involved in Regulation of AMPK activity via LKB1
0.0 0.3 REACTOME A TETRASACCHARIDE LINKER SEQUENCE IS REQUIRED FOR GAG SYNTHESIS Genes involved in A tetrasaccharide linker sequence is required for GAG synthesis
0.0 0.1 REACTOME HS GAG DEGRADATION Genes involved in HS-GAG degradation