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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for prox1a+prox2+prox3

Z-value: 0.60

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Transcription factors associated with prox1a+prox2+prox3

Gene Symbol Gene ID Gene Info
prox2
ENSDARG00000041952 prospero homeobox 2
prox1a
ENSDARG00000055158 prospero homeobox 1a
prox3
ENSDARG00000088810 prospero homeobox 3
prox3
ENSDARG00000113014 prospero homeobox 3
prox2
ENSDARG00000117137 prospero homeobox 2

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
prox2dr11_v1_chr17_-_52521002_52521002-0.798.3e-05Click!
prox1adr11_v1_chr17_-_32863250_32863250-0.753.0e-04Click!
prox1bdr11_v1_chr7_-_19940473_199404730.719.5e-04Click!

Activity profile of prox1a+prox2+prox3 motif

Sorted Z-values of prox1a+prox2+prox3 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr16_-_54919260 2.09 ENSDART00000156533
kdf1a
keratinocyte differentiation factor 1a
chr8_+_47219107 1.69 ENSDART00000146018
ENSDART00000075068
mthfr
methylenetetrahydrofolate reductase (NAD(P)H)
chr2_+_25658112 1.60 ENSDART00000051234
tnika
TRAF2 and NCK interacting kinase a
chr14_+_24840669 1.50 ENSDART00000106039
arhgef37
Rho guanine nucleotide exchange factor (GEF) 37
chr1_-_9486214 1.48 ENSDART00000137821
micall2b
mical-like 2b
chr7_-_44605050 1.47 ENSDART00000148471
ENSDART00000149072
tk2
thymidine kinase 2, mitochondrial
chr1_-_9485939 1.47 ENSDART00000157814
micall2b
mical-like 2b
chr3_-_26191960 1.35 ENSDART00000113843
ypel3
yippee-like 3
chr16_+_39196727 1.33 ENSDART00000017017
zdhhc3a
zinc finger, DHHC-type containing 3a
chr14_+_28473173 1.33 ENSDART00000017075
xiap
X-linked inhibitor of apoptosis
chr19_+_42886413 1.26 ENSDART00000151298
arpp21
cAMP-regulated phosphoprotein, 21
chr7_+_6941583 1.12 ENSDART00000160709
ENSDART00000157634
rbm14b
RNA binding motif protein 14b
chr12_-_23365737 0.95 ENSDART00000170376
mpp7a
membrane protein, palmitoylated 7a (MAGUK p55 subfamily member 7)
chr19_-_31042570 0.94 ENSDART00000144337
ENSDART00000136213
ENSDART00000133101
ENSDART00000190949
bzw2
basic leucine zipper and W2 domains 2
chr18_+_16750080 0.94 ENSDART00000136320
rnf141
ring finger protein 141
chr17_+_15674052 0.93 ENSDART00000156726
bach2a
BTB and CNC homology 1, basic leucine zipper transcription factor 2a
chr11_-_25461336 0.90 ENSDART00000014945
hcfc1a
host cell factor C1a
chr15_+_2190229 0.88 ENSDART00000147710
rsrc1
arginine/serine-rich coiled-coil 1
chr13_-_35765028 0.87 ENSDART00000157391
erlec1
endoplasmic reticulum lectin 1
chr10_+_7719796 0.86 ENSDART00000191795
ggcx
gamma-glutamyl carboxylase
chr13_-_12667220 0.86 ENSDART00000079594
fam241a
family with sequence similarity 241 member A
chr13_+_11829072 0.78 ENSDART00000079356
ENSDART00000170160
sufu
suppressor of fused homolog (Drosophila)
chr4_+_5196469 0.77 ENSDART00000067386
rad51ap1
RAD51 associated protein 1
chr15_-_31177324 0.76 ENSDART00000008854
wsb1
WD repeat and SOCS box containing 1
chr9_+_8968702 0.76 ENSDART00000008490
ube2al
ubiquitin conjugating enzyme E2 A, like
chr9_+_21401189 0.73 ENSDART00000062669
cx30.3
connexin 30.3
chr2_+_50722439 0.72 ENSDART00000188927
fyco1b
FYVE and coiled-coil domain containing 1b
chr14_-_6286966 0.71 ENSDART00000168174
elp1
elongator complex protein 1
chr6_+_59642695 0.66 ENSDART00000166373
ENSDART00000161030
R3HDM2
R3H domain containing 2
chr7_-_44604540 0.65 ENSDART00000149186
tk2
thymidine kinase 2, mitochondrial
chr7_-_44604821 0.64 ENSDART00000148967
tk2
thymidine kinase 2, mitochondrial
chr8_+_11325310 0.64 ENSDART00000142577
fxn
frataxin
chr14_-_30971264 0.58 ENSDART00000010512
zgc:92907
zgc:92907
chr10_-_38316134 0.58 ENSDART00000149580
nrip1b
nuclear receptor interacting protein 1b
chr6_-_32411703 0.56 ENSDART00000151002
ENSDART00000078908
usp1
ubiquitin specific peptidase 1
chr20_+_38201644 0.54 ENSDART00000022694
ehd3
EH-domain containing 3
chr24_-_18809433 0.54 ENSDART00000152009
arfgef1
ADP-ribosylation factor guanine nucleotide-exchange factor 1 (brefeldin A-inhibited)
chr16_-_13680692 0.51 ENSDART00000047452
ube2s
ubiquitin-conjugating enzyme E2S
chr23_+_45845423 0.50 ENSDART00000183404
lmnl3
lamin L3
chr7_+_20917966 0.49 ENSDART00000129161
wrap53
WD repeat containing, antisense to TP53
chr3_+_22335030 0.47 ENSDART00000055676
zgc:103564
zgc:103564
chr10_+_43037064 0.46 ENSDART00000160159
atg10
ATG10 autophagy related 10 homolog (S. cerevisiae)
chr12_-_4408828 0.43 ENSDART00000152447
si:ch211-173d10.1
si:ch211-173d10.1
chr7_+_7019911 0.38 ENSDART00000172421
rbm14b
RNA binding motif protein 14b
chr22_+_10678141 0.38 ENSDART00000193341
hyal2b
hyaluronoglucosaminidase 2b
chr19_-_27395531 0.37 ENSDART00000103940
mgat1b
mannosyl (alpha-1,3-)-glycoprotein beta-1,2-N-acetylglucosaminyltransferase b
chr3_-_15667713 0.36 ENSDART00000026658
zgc:66474
zgc:66474
chr15_-_23475051 0.35 ENSDART00000152460
nlrx1
NLR family member X1
chr13_+_35765317 0.35 ENSDART00000100156
ENSDART00000167650
agpat4
1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)
chr18_-_34549721 0.33 ENSDART00000137101
ENSDART00000021880
ssr3
signal sequence receptor, gamma
chr12_-_31422433 0.32 ENSDART00000186075
ENSDART00000153172
ENSDART00000066256
vti1a
vesicle transport through interaction with t-SNAREs 1A
chrM_+_8894 0.32 ENSDART00000093611
mt-atp8
ATP synthase 8, mitochondrial
chr8_+_30600386 0.31 ENSDART00000164976
specc1la
sperm antigen with calponin homology and coiled-coil domains 1-like a
chr2_+_6885852 0.28 ENSDART00000016607
rgs5b
regulator of G protein signaling 5b
chr17_-_37195163 0.27 ENSDART00000108514
asxl2
additional sex combs like transcriptional regulator 2
chr4_+_3455146 0.26 ENSDART00000180124
znf800b
zinc finger protein 800b
chr13_-_27384697 0.26 ENSDART00000146230
kcnq5a
potassium voltage-gated channel, KQT-like subfamily, member 5a
chr17_-_37195354 0.25 ENSDART00000190963
asxl2
additional sex combs like transcriptional regulator 2
chr23_-_13877898 0.24 ENSDART00000138696
g6pd
glucose-6-phosphate dehydrogenase
chr25_+_22587306 0.23 ENSDART00000067479
stra6
stimulated by retinoic acid 6
chr19_-_13950231 0.23 ENSDART00000168665
sh3bgrl3
SH3 domain binding glutamate-rich protein like 3
chr25_+_16312258 0.23 ENSDART00000064187
parvaa
parvin, alpha a
chr20_-_54014373 0.22 ENSDART00000152934
si:dkey-241l7.6
si:dkey-241l7.6
chr22_+_17286841 0.18 ENSDART00000133176
FAM163A
si:dkey-171o17.8
chr12_+_6065661 0.17 ENSDART00000142418
sgms1
sphingomyelin synthase 1
chr3_+_21200763 0.17 ENSDART00000067841
zgc:112038
zgc:112038
chr5_-_69707787 0.16 ENSDART00000108820
ENSDART00000149692
dguok
deoxyguanosine kinase
chr4_+_3455665 0.15 ENSDART00000058277
znf800b
zinc finger protein 800b
chr25_-_10630496 0.13 ENSDART00000153639
ENSDART00000181722
ENSDART00000177834
ppp6r3
protein phosphatase 6, regulatory subunit 3
chr17_-_21832119 0.13 ENSDART00000153539
ENSDART00000079008
si:ch211-208g24.8
si:ch211-208g24.8
chr25_+_8407892 0.11 ENSDART00000153536
muc5.2
mucin 5.2
chr16_-_31000727 0.11 ENSDART00000077185
dgat1b
diacylglycerol O-acyltransferase 1b
chr22_-_23591493 0.10 ENSDART00000170266
f13b
coagulation factor XIII, B polypeptide
chr19_+_7929704 0.10 ENSDART00000147015
si:dkey-266f7.4
si:dkey-266f7.4
chr21_+_21791343 0.09 ENSDART00000151654
neu3.1
sialidase 3 (membrane sialidase), tandem duplicate 1
chr12_+_13404784 0.08 ENSDART00000167977
kcnh4b
potassium voltage-gated channel, subfamily H (eag-related), member 4b
chr17_-_10059557 0.08 ENSDART00000092209
ENSDART00000161243
baz1a
bromodomain adjacent to zinc finger domain, 1A
chr5_+_37517800 0.08 ENSDART00000048107
FP102018.1
Danio rerio latent transforming growth factor beta binding protein 3 (ltbp3), mRNA.
chr10_-_20637098 0.07 ENSDART00000080391
sprn2
shadow of prion protein 2
chrM_+_9052 0.07 ENSDART00000093612
mt-atp6
ATP synthase 6, mitochondrial
chr25_+_19947096 0.07 ENSDART00000154221
kcna6a
potassium voltage-gated channel, shaker-related, subfamily, member 6 a
chr5_-_61638125 0.06 ENSDART00000134314
si:dkey-261j4.3
si:dkey-261j4.3
chr11_+_6739433 0.06 ENSDART00000163397
pde4cb
phosphodiesterase 4C, cAMP-specific b
chr7_-_16205471 0.06 ENSDART00000173584
btr05
bloodthirsty-related gene family, member 5
chr14_+_31751260 0.05 ENSDART00000169796
si:dkeyp-11e3.1
si:dkeyp-11e3.1
chr8_-_4475908 0.05 ENSDART00000191027
si:ch211-166a6.5
si:ch211-166a6.5
chr22_-_23591340 0.04 ENSDART00000167024
f13b
coagulation factor XIII, B polypeptide
chr19_-_22621991 0.03 ENSDART00000175106
pleca
plectin a
chr17_+_5895500 0.03 ENSDART00000019905
fndc4b
fibronectin type III domain containing 4b
chr19_-_22621811 0.03 ENSDART00000090669
pleca
plectin a
chr15_-_5245726 0.02 ENSDART00000174079
ENSDART00000174041
or128-1
odorant receptor, family E, subfamily 128, member 1
chr4_-_71551644 0.02 ENSDART00000168064
si:dkey-27n6.1
si:dkey-27n6.1
chr3_+_21669545 0.01 ENSDART00000156527
crhr1
corticotropin releasing hormone receptor 1
chr2_+_927204 0.01 ENSDART00000165477
AL935300.3

chr4_-_75899294 0.01 ENSDART00000157887
si:dkey-261j11.3
si:dkey-261j11.3
chr25_+_19947298 0.01 ENSDART00000067648
kcna6a
potassium voltage-gated channel, shaker-related, subfamily, member 6 a
chr18_-_44611252 0.00 ENSDART00000173095
spred3
sprouty-related, EVH1 domain containing 3

Network of associatons between targets according to the STRING database.

First level regulatory network of prox1a+prox2+prox3

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
0.4 2.1 GO:0010481 epidermal cell division(GO:0010481) regulation of epidermal cell division(GO:0010482)
0.2 0.7 GO:0002926 tRNA wobble base 5-methoxycarbonylmethyl-2-thiouridine biosynthesis.(GO:0002926)
0.2 0.8 GO:1900181 regulation of protein import into nucleus(GO:0042306) negative regulation of protein import into nucleus(GO:0042308) negative regulation of nucleocytoplasmic transport(GO:0046823) negative regulation of protein localization to nucleus(GO:1900181) regulation of protein import(GO:1904589) negative regulation of protein import(GO:1904590)
0.1 0.7 GO:1901098 positive regulation of autophagosome maturation(GO:1901098)
0.1 0.9 GO:0017187 peptidyl-glutamic acid carboxylation(GO:0017187) protein carboxylation(GO:0018214)
0.1 1.7 GO:0035999 methionine biosynthetic process(GO:0009086) tetrahydrofolate interconversion(GO:0035999)
0.1 0.5 GO:0030576 nuclear body organization(GO:0030575) Cajal body organization(GO:0030576)
0.1 0.5 GO:1904668 positive regulation of ubiquitin protein ligase activity(GO:1904668)
0.1 0.6 GO:0006488 dolichol-linked oligosaccharide biosynthetic process(GO:0006488)
0.1 3.0 GO:0036269 swimming behavior(GO:0036269)
0.1 0.9 GO:0051865 protein autoubiquitination(GO:0051865)
0.0 0.2 GO:0071939 vitamin A transport(GO:0071938) vitamin A import(GO:0071939)
0.0 1.3 GO:0031398 positive regulation of protein ubiquitination(GO:0031398)
0.0 1.3 GO:0018231 peptidyl-L-cysteine S-palmitoylation(GO:0018230) peptidyl-S-diacylglycerol-L-cysteine biosynthetic process from peptidyl-cysteine(GO:0018231)
0.0 0.3 GO:0048280 vesicle fusion with Golgi apparatus(GO:0048280)
0.0 0.6 GO:0016226 iron-sulfur cluster assembly(GO:0016226) metallo-sulfur cluster assembly(GO:0031163)
0.0 0.4 GO:0030214 hyaluronan catabolic process(GO:0030214)
0.0 0.8 GO:0036297 interstrand cross-link repair(GO:0036297)
0.0 0.8 GO:0016574 histone ubiquitination(GO:0016574)
0.0 0.2 GO:0006686 sphingomyelin biosynthetic process(GO:0006686)
0.0 0.3 GO:0060325 face morphogenesis(GO:0060325)
0.0 0.2 GO:0006098 pentose-phosphate shunt(GO:0006098)
0.0 0.3 GO:0006614 SRP-dependent cotranslational protein targeting to membrane(GO:0006614)
0.0 0.4 GO:0015986 energy coupled proton transport, down electrochemical gradient(GO:0015985) ATP synthesis coupled proton transport(GO:0015986)
0.0 0.4 GO:0043124 negative regulation of I-kappaB kinase/NF-kappaB signaling(GO:0043124)
0.0 1.6 GO:0032147 activation of protein kinase activity(GO:0032147)
0.0 0.5 GO:0032011 ARF protein signal transduction(GO:0032011) regulation of ARF protein signal transduction(GO:0032012)
0.0 0.5 GO:0032456 endocytic recycling(GO:0032456)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.2 0.8 GO:0035301 Hedgehog signaling complex(GO:0035301)
0.2 0.8 GO:0033503 HULC complex(GO:0033503)
0.1 0.5 GO:0035517 PR-DUB complex(GO:0035517)
0.1 0.7 GO:0033588 Elongator holoenzyme complex(GO:0033588)
0.0 0.9 GO:0048188 Set1C/COMPASS complex(GO:0048188)
0.0 1.3 GO:0005876 spindle microtubule(GO:0005876)
0.0 0.5 GO:0015030 Cajal body(GO:0015030)
0.0 0.5 GO:0060170 ciliary membrane(GO:0060170)
0.0 0.4 GO:0045263 proton-transporting ATP synthase complex, coupling factor F(o)(GO:0045263)
0.0 0.3 GO:0005921 gap junction(GO:0005921)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.4 2.9 GO:0019136 deoxynucleoside kinase activity(GO:0019136)
0.2 1.3 GO:0019107 myristoyltransferase activity(GO:0019107)
0.2 0.9 GO:0008488 gamma-glutamyl carboxylase activity(GO:0008488)
0.2 0.5 GO:0019777 Atg12 transferase activity(GO:0019777)
0.1 0.5 GO:0042975 peroxisome proliferator activated receptor binding(GO:0042975)
0.1 1.3 GO:0043027 cysteine-type endopeptidase inhibitor activity involved in apoptotic process(GO:0043027) cysteine-type endopeptidase regulator activity involved in apoptotic process(GO:0043028)
0.1 0.4 GO:0033906 hyaluronoglucuronidase activity(GO:0033906)
0.1 0.4 GO:0003827 alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity(GO:0003827)
0.1 0.6 GO:0016530 metallochaperone activity(GO:0016530)
0.1 0.2 GO:0004345 glucose-6-phosphate dehydrogenase activity(GO:0004345)
0.1 1.7 GO:0016646 oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor(GO:0016646)
0.0 0.2 GO:0034632 retinol transporter activity(GO:0034632)
0.0 0.2 GO:0047493 sphingomyelin synthase activity(GO:0033188) ceramide cholinephosphotransferase activity(GO:0047493)
0.0 1.3 GO:0061631 ubiquitin conjugating enzyme activity(GO:0061631)
0.0 0.3 GO:0003841 1-acylglycerol-3-phosphate O-acyltransferase activity(GO:0003841)
0.0 0.7 GO:0000049 tRNA binding(GO:0000049)
0.0 0.1 GO:0004144 diacylglycerol O-acyltransferase activity(GO:0004144)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 1.3 SA CASPASE CASCADE Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade.
0.0 0.6 PID HIF2PATHWAY HIF-2-alpha transcription factor network
0.0 0.8 PID HEDGEHOG GLI PATHWAY Hedgehog signaling events mediated by Gli proteins
0.0 0.6 PID FANCONI PATHWAY Fanconi anemia pathway

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 2.8 REACTOME PYRIMIDINE METABOLISM Genes involved in Pyrimidine metabolism
0.1 0.9 REACTOME GAMMA CARBOXYLATION TRANSPORT AND AMINO TERMINAL CLEAVAGE OF PROTEINS Genes involved in Gamma-carboxylation, transport, and amino-terminal cleavage of proteins
0.1 1.3 REACTOME INTRINSIC PATHWAY FOR APOPTOSIS Genes involved in Intrinsic Pathway for Apoptosis
0.1 0.6 REACTOME REGULATION OF THE FANCONI ANEMIA PATHWAY Genes involved in Regulation of the Fanconi anemia pathway
0.0 1.7 REACTOME METABOLISM OF VITAMINS AND COFACTORS Genes involved in Metabolism of vitamins and cofactors
0.0 0.2 REACTOME PURINE SALVAGE Genes involved in Purine salvage
0.0 0.3 REACTOME SYNTHESIS OF PA Genes involved in Synthesis of PA
0.0 0.1 REACTOME COMMON PATHWAY Genes involved in Common Pathway
0.0 0.5 REACTOME EXTENSION OF TELOMERES Genes involved in Extension of Telomeres
0.0 0.6 REACTOME MITOCHONDRIAL PROTEIN IMPORT Genes involved in Mitochondrial Protein Import
0.0 0.4 REACTOME NEGATIVE REGULATORS OF RIG I MDA5 SIGNALING Genes involved in Negative regulators of RIG-I/MDA5 signaling