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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for pitx1+pitx3

Z-value: 0.27

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Transcription factors associated with pitx1+pitx3

Gene Symbol Gene ID Gene Info
pitx3
ENSDARG00000070069 paired-like homeodomain 3
pitx1
ENSDARG00000116608 paired-like homeodomain 1

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
pitx3dr11_v1_chr13_-_7573670_7573670-0.881.1e-06Click!
pitx1dr11_v1_chr21_+_45819662_45819729-0.681.7e-03Click!

Activity profile of pitx1+pitx3 motif

Sorted Z-values of pitx1+pitx3 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr2_-_32738535 0.85 ENSDART00000135293
nrbp2a
nuclear receptor binding protein 2a
chr7_+_46020508 0.75 ENSDART00000170294
ccne1
cyclin E1
chr15_+_38299385 0.69 ENSDART00000142403
si:dkey-24p1.6
si:dkey-24p1.6
chr15_+_38299563 0.65 ENSDART00000099375
si:dkey-24p1.6
si:dkey-24p1.6
chr13_+_15838151 0.62 ENSDART00000008987
klc1a
kinesin light chain 1a
chr3_-_33175583 0.52 ENSDART00000126022
rarab
retinoic acid receptor, alpha b
chr23_-_32334208 0.52 ENSDART00000053472
rnf41
ring finger protein 41
chr17_+_16046314 0.50 ENSDART00000154554
ENSDART00000154338
ENSDART00000155336
si:ch73-204p21.2
si:ch73-204p21.2
chr22_-_20695237 0.49 ENSDART00000112722
org
oogenesis-related gene
chr17_+_16046132 0.48 ENSDART00000155005
si:ch73-204p21.2
si:ch73-204p21.2
chr15_+_11693624 0.39 ENSDART00000193630
ENSDART00000161930
strn4
striatin, calmodulin binding protein 4
chr19_+_43523690 0.38 ENSDART00000113031
wasf2
WAS protein family, member 2
chr15_-_8856785 0.33 ENSDART00000192816
rab4b
RAB4B, member RAS oncogene family
chr8_+_23356264 0.31 ENSDART00000145062
dnmt3ba
DNA (cytosine-5-)-methyltransferase 3 beta, duplicate a
chr1_-_30762264 0.29 ENSDART00000085454
dis3
DIS3 exosome endoribonuclease and 3'-5' exoribonuclease
chr10_-_10016348 0.28 ENSDART00000129151
strbp
spermatid perinuclear RNA binding protein
chr6_+_41554794 0.28 ENSDART00000165424
srgap3
SLIT-ROBO Rho GTPase activating protein 3
chr17_+_23729717 0.27 ENSDART00000179026
zgc:91976
zgc:91976
chr15_-_8309207 0.27 ENSDART00000143880
ENSDART00000061351
tnfrsf19
tumor necrosis factor receptor superfamily, member 19
chr6_-_14040136 0.23 ENSDART00000065361
ENSDART00000179765
etv5b
ets variant 5b
chr20_-_38525467 0.23 ENSDART00000061417
si:ch211-245h14.1
si:ch211-245h14.1
chr16_-_25663846 0.21 ENSDART00000031304
derl1
derlin 1
chr8_+_16990120 0.20 ENSDART00000018934
pde4d
phosphodiesterase 4D, cAMP-specific
chr19_-_10207103 0.18 ENSDART00000151629
znf865
zinc finger protein 865
chr5_+_60919378 0.17 ENSDART00000184915
doc2b
double C2-like domains, beta
chr11_-_27778831 0.17 ENSDART00000023823
cass4
Cas scaffolding protein family member 4
chr7_+_53413445 0.17 ENSDART00000190480
znf609b
zinc finger protein 609b
chr4_+_25692277 0.16 ENSDART00000047113
acot18
acyl-CoA thioesterase 18
chr7_+_38962459 0.15 ENSDART00000173851
dgkza
diacylglycerol kinase, zeta a
chr3_-_50139860 0.15 ENSDART00000101563
btr02
bloodthirsty-related gene family, member 2
chr18_+_29898955 0.15 ENSDART00000064080
cenpn
centromere protein N
chr2_-_31686353 0.14 ENSDART00000126177
ENSDART00000056679
e2f5
E2F transcription factor 5
chr10_+_6013076 0.11 ENSDART00000167613
ENSDART00000159216
hmgcs1
3-hydroxy-3-methylglutaryl-CoA synthase 1 (soluble)
chr16_+_29586468 0.11 ENSDART00000148926
mcl1b
MCL1, BCL2 family apoptosis regulator b
chr10_+_28308376 0.09 ENSDART00000191216
ptrh2
peptidyl-tRNA hydrolase 2
chr16_+_29586004 0.09 ENSDART00000149520
mcl1b
MCL1, BCL2 family apoptosis regulator b
chr24_-_20321012 0.08 ENSDART00000163683
map3k20
mitogen-activated protein kinase kinase kinase 20
chr12_+_47917971 0.07 ENSDART00000185933
tbata
thymus, brain and testes associated
chr23_+_22335407 0.07 ENSDART00000147696
rap1gap
RAP1 GTPase activating protein
chr20_+_29587995 0.07 ENSDART00000153339
adam17b
ADAM metallopeptidase domain 17b
chr19_+_2631565 0.06 ENSDART00000171487
fam126a
family with sequence similarity 126, member A
chr10_-_25628555 0.05 ENSDART00000143978
tiam1a
T cell lymphoma invasion and metastasis 1a
chr4_-_5077158 0.05 ENSDART00000155915
ahcyl2
adenosylhomocysteinase-like 2
chr12_+_33151246 0.05 ENSDART00000162681
rbfox3a
RNA binding fox-1 homolog 3a
chr21_+_1143141 0.05 ENSDART00000178294
CABZ01086139.1

chr18_+_13203831 0.04 ENSDART00000032151
cotl1
coactosin-like F-actin binding protein 1
chr24_-_20320480 0.04 ENSDART00000137366
map3k20
mitogen-activated protein kinase kinase kinase 20
chr18_-_31916845 0.03 ENSDART00000165908
olfcs2
olfactory receptor C family, s2
chr16_-_51299061 0.02 ENSDART00000148677
serpinb1l4
serpin peptidase inhibitor, clade B (ovalbumin), member 1, like 4
chr7_-_66864756 0.02 ENSDART00000184462
ENSDART00000189424
ampd3a
adenosine monophosphate deaminase 3a
chr14_+_1124409 0.02 ENSDART00000190043
ENSDART00000106708
ENSDART00000160246
sec24b
SEC24 homolog B, COPII coat complex component
chr18_+_7639401 0.02 ENSDART00000092416
rabl2
RAB, member of RAS oncogene family-like 2
chr11_-_29563437 0.01 ENSDART00000163958
arhgef10la
Rho guanine nucleotide exchange factor (GEF) 10-like a
chr15_+_45640906 0.01 ENSDART00000149361
ENSDART00000149079
sagb
S-antigen; retina and pineal gland (arrestin) b
chr3_-_33574576 0.01 ENSDART00000184881
CR847537.1

chr8_+_21010850 0.01 ENSDART00000100295
si:dkeyp-82a1.4
si:dkeyp-82a1.4
chr13_-_29505604 0.01 ENSDART00000110005
cdhr1a
cadherin-related family member 1a
chr1_+_56180416 0.01 ENSDART00000089358
crb3b
crumbs homolog 3b
chr4_+_45357558 0.01 ENSDART00000150769
si:ch211-162i8.5
si:ch211-162i8.5
chr18_+_3022188 0.01 ENSDART00000170004
CU570791.1

chr20_-_1141722 0.01 ENSDART00000152675
gabrr1
gamma-aminobutyric acid (GABA) A receptor, rho 1
chr7_-_17780048 0.01 ENSDART00000183336
si:dkey-106g10.7
si:dkey-106g10.7

Network of associatons between targets according to the STRING database.

First level regulatory network of pitx1+pitx3

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 0.3 GO:0014045 establishment of endothelial blood-brain barrier(GO:0014045)
0.0 0.5 GO:0003139 secondary heart field specification(GO:0003139)
0.0 0.1 GO:1902767 farnesyl diphosphate biosynthetic process, mevalonate pathway(GO:0010142) isoprenoid biosynthetic process via mevalonate(GO:1902767)
0.0 0.2 GO:0090527 actin filament reorganization(GO:0090527)
0.0 0.3 GO:0006686 sphingomyelin biosynthetic process(GO:0006686)
0.0 0.4 GO:0051127 positive regulation of actin nucleation(GO:0051127) positive regulation of Arp2/3 complex-mediated actin nucleation(GO:2000601)
0.0 0.3 GO:0016075 rRNA catabolic process(GO:0016075)
0.0 0.2 GO:0021979 hypothalamus cell differentiation(GO:0021979) limb morphogenesis(GO:0035108)
0.0 0.7 GO:0000079 regulation of cyclin-dependent protein serine/threonine kinase activity(GO:0000079) regulation of cyclin-dependent protein kinase activity(GO:1904029)
0.0 0.2 GO:0031340 positive regulation of vesicle fusion(GO:0031340)
0.0 0.2 GO:0043154 negative regulation of cysteine-type endopeptidase activity involved in apoptotic process(GO:0043154)
0.0 0.3 GO:0032482 Rab protein signal transduction(GO:0032482)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.2 0.7 GO:0097134 cyclin E1-CDK2 complex(GO:0097134)
0.0 0.2 GO:0000839 Hrd1p ubiquitin ligase ERAD-L complex(GO:0000839)
0.0 0.5 GO:0071782 endoplasmic reticulum tubular network(GO:0071782) endoplasmic reticulum subcompartment(GO:0098827)
0.0 0.3 GO:0032593 insulin-responsive compartment(GO:0032593)
0.0 0.3 GO:0000177 nuclear exosome (RNase complex)(GO:0000176) cytoplasmic exosome (RNase complex)(GO:0000177)
0.0 0.4 GO:0031209 SCAR complex(GO:0031209)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 0.2 GO:1990381 ubiquitin-specific protease binding(GO:1990381)
0.1 0.4 GO:0070016 armadillo repeat domain binding(GO:0070016)
0.0 0.3 GO:0047493 sphingomyelin synthase activity(GO:0033188) ceramide cholinephosphotransferase activity(GO:0047493)
0.0 0.4 GO:0071933 Arp2/3 complex binding(GO:0071933)
0.0 0.1 GO:0004421 hydroxymethylglutaryl-CoA synthase activity(GO:0004421)
0.0 0.3 GO:0003886 DNA (cytosine-5-)-methyltransferase activity(GO:0003886)
0.0 0.1 GO:0004045 aminoacyl-tRNA hydrolase activity(GO:0004045)
0.0 0.7 GO:0016538 cyclin-dependent protein serine/threonine kinase regulator activity(GO:0016538)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.7 SA REG CASCADE OF CYCLIN EXPR Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases.
0.0 0.4 PID ECADHERIN NASCENT AJ PATHWAY E-cadherin signaling in the nascent adherens junction

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 0.5 REACTOME DOWNREGULATION OF ERBB2 ERBB3 SIGNALING Genes involved in Downregulation of ERBB2:ERBB3 signaling
0.0 0.9 REACTOME G0 AND EARLY G1 Genes involved in G0 and Early G1
0.0 0.3 REACTOME MRNA DECAY BY 3 TO 5 EXORIBONUCLEASE Genes involved in mRNA Decay by 3' to 5' Exoribonuclease
0.0 0.2 REACTOME DARPP 32 EVENTS Genes involved in DARPP-32 events