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PRJNA195909:zebrafish embryo and larva development

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Results for rx1+rx2

Z-value: 0.34

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Transcription factors associated with rx1+rx2

Gene Symbol Gene ID Gene Info
rx2
ENSDARG00000040321 retinal homeobox gene 2
rx1
ENSDARG00000071684 retinal homeobox gene 1

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
rx2dr11_v1_chr2_-_55861351_558613510.845.1e-03Click!
rx1dr11_v1_chr22_-_5006801_50068010.791.1e-02Click!

Activity profile of rx1+rx2 motif

Sorted Z-values of rx1+rx2 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr4_-_9891874 0.69 ENSDART00000067193
adm2a
adrenomedullin 2a
chr18_-_5598958 0.54 ENSDART00000161538
cyp1a
cytochrome P450, family 1, subfamily A
chr21_+_6751760 0.49 ENSDART00000135914
olfm1b
olfactomedin 1b
chr5_+_32260502 0.47 ENSDART00000149020
si:ch211-158m24.12
si:ch211-158m24.12
chr21_+_6751405 0.47 ENSDART00000037265
ENSDART00000146371
olfm1b
olfactomedin 1b
chr8_+_16025554 0.43 ENSDART00000110171
elavl4
ELAV like neuron-specific RNA binding protein 4
chr22_-_10121880 0.42 ENSDART00000002348
rdh5
retinol dehydrogenase 5 (11-cis/9-cis)
chr16_+_23984179 0.41 ENSDART00000175879
apoc2
apolipoprotein C-II
chr21_-_43015383 0.40 ENSDART00000065097
dpysl3
dihydropyrimidinase-like 3
chr23_+_43255328 0.38 ENSDART00000102712
tgm2a
transglutaminase 2, C polypeptide A
chr15_-_5815006 0.37 ENSDART00000102459
rbp2a
retinol binding protein 2a, cellular
chr8_-_16697615 0.36 ENSDART00000187929
rpe65b
retinal pigment epithelium-specific protein 65b
chr18_+_9171778 0.32 ENSDART00000101192
sema3d
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D
chr6_-_7720332 0.31 ENSDART00000135945
rpsa
ribosomal protein SA
chr3_-_53533128 0.29 ENSDART00000183591
notch3
notch 3
chr23_-_15216654 0.28 ENSDART00000131649
sulf2b
sulfatase 2b
chr3_-_26017831 0.28 ENSDART00000179982
hmox1a
heme oxygenase 1a
chr17_-_49978986 0.27 ENSDART00000154728
col12a1a
collagen, type XII, alpha 1a
chr15_+_23799461 0.26 ENSDART00000154885
si:ch211-167j9.4
si:ch211-167j9.4
chr8_+_29986265 0.26 ENSDART00000148258
ptch1
patched 1
chr4_+_21129752 0.25 ENSDART00000169764
syt1a
synaptotagmin Ia
chr3_+_28953274 0.25 ENSDART00000133528
ENSDART00000103602
lgals2a
lectin, galactoside-binding, soluble, 2a
chr8_+_25079470 0.23 ENSDART00000000744
sypl2b
synaptophysin-like 2b
chr19_+_42983613 0.23 ENSDART00000033724
fabp3
fatty acid binding protein 3, muscle and heart
chr25_+_11008419 0.23 ENSDART00000156589
mhc1lia
major histocompatibility complex class I LIA
chr7_+_6652967 0.22 ENSDART00000102681
pnp5a
purine nucleoside phosphorylase 5a
chr24_+_38301080 0.21 ENSDART00000105672
mybpc2b
myosin binding protein C, fast type b
chr6_+_57541776 0.21 ENSDART00000157330
necab3
N-terminal EF-hand calcium binding protein 3
chr18_+_21408794 0.20 ENSDART00000140161
necab2
N-terminal EF-hand calcium binding protein 2
chr5_-_12219572 0.20 ENSDART00000167834
nos1
nitric oxide synthase 1 (neuronal)
chr19_-_42391383 0.20 ENSDART00000110075
ENSDART00000087002
plekho1a
pleckstrin homology domain containing, family O member 1a
chr20_+_43925266 0.20 ENSDART00000037379
clic5b
chloride intracellular channel 5b
chr4_-_4387012 0.18 ENSDART00000191836
CU468826.3
Danio rerio U2 small nuclear ribonucleoprotein auxiliary factor 35 kDa subunit-related protein 1-like (LOC100331497), mRNA.
chr5_+_58550795 0.18 ENSDART00000192282
pou2f3
POU class 2 homeobox 3
chr9_+_21165484 0.17 ENSDART00000177286
si:rp71-68n21.9
si:rp71-68n21.9
chr14_-_33824329 0.17 ENSDART00000189271
ENSDART00000180458
vimr2
vimentin-related 2
chr16_-_32013913 0.16 ENSDART00000030282
ENSDART00000138701
gstk1
glutathione S-transferase kappa 1
chr4_+_9400012 0.16 ENSDART00000191960
tmtc1
transmembrane and tetratricopeptide repeat containing 1
chr14_-_413273 0.16 ENSDART00000163976
ENSDART00000179907
FAT4
FAT atypical cadherin 4
chr15_-_22074315 0.16 ENSDART00000149830
drd2a
dopamine receptor D2a
chr7_+_46368520 0.15 ENSDART00000192821
znf536
zinc finger protein 536
chr6_+_7421898 0.15 ENSDART00000043946
ccdc65
coiled-coil domain containing 65
chr1_+_21731382 0.15 ENSDART00000054395
pax5
paired box 5
chr15_-_14552101 0.14 ENSDART00000171169
numbl
numb homolog (Drosophila)-like
chr24_-_31425799 0.14 ENSDART00000157998
cngb3.1
cyclic nucleotide gated channel beta 3, tandem duplicate 1
chr24_-_36680261 0.14 ENSDART00000059507
ccr10
chemokine (C-C motif) receptor 10
chr7_-_33960170 0.14 ENSDART00000180766
skor1a
SKI family transcriptional corepressor 1a
chr2_+_50608099 0.13 ENSDART00000185805
ENSDART00000111135
neurod6b
neuronal differentiation 6b
chr3_+_17537352 0.13 ENSDART00000104549
hcrt
hypocretin (orexin) neuropeptide precursor
chr16_-_25568512 0.13 ENSDART00000149411
atxn1b
ataxin 1b
chr13_+_4871886 0.12 ENSDART00000132301
micu1
mitochondrial calcium uptake 1
chr11_-_21528056 0.12 ENSDART00000181626
srgap2
SLIT-ROBO Rho GTPase activating protein 2
chr14_+_30795559 0.12 ENSDART00000006132
cfl1
cofilin 1
chr11_+_7264457 0.11 ENSDART00000154182
reep6
receptor accessory protein 6
chr19_-_5669122 0.10 ENSDART00000112211
si:ch211-264f5.2
si:ch211-264f5.2
chr8_-_24332284 0.09 ENSDART00000163241
pimr142
Pim proto-oncogene, serine/threonine kinase, related 142
chr18_+_28106139 0.09 ENSDART00000089615
kiaa1549lb
KIAA1549-like b
chr1_+_44127292 0.09 ENSDART00000160542
cabp2a
calcium binding protein 2a
chr9_-_52962521 0.09 ENSDART00000170419
CU855885.1

chr5_+_1079423 0.09 ENSDART00000172231
si:zfos-128g4.2
si:zfos-128g4.2
chr3_-_23407720 0.09 ENSDART00000155658
rapgefl1
Rap guanine nucleotide exchange factor (GEF)-like 1
chr4_+_6032640 0.09 ENSDART00000157487
tfec
transcription factor EC
chr15_+_5360407 0.08 ENSDART00000110420
or112-1
odorant receptor, family A, subfamily 112, member 1
chr7_+_54642005 0.08 ENSDART00000171864
fgf19
fibroblast growth factor 19
chr1_-_44701313 0.08 ENSDART00000193926
si:dkey-28b4.8
si:dkey-28b4.8
chr16_-_51288178 0.08 ENSDART00000079864
zgc:173729
zgc:173729
chr8_+_18011522 0.08 ENSDART00000136756
ssbp3b
single stranded DNA binding protein 3b
chr10_-_5581487 0.07 ENSDART00000141943
syk
spleen tyrosine kinase
chr11_+_16153207 0.07 ENSDART00000192356
tada3l
transcriptional adaptor 3 (NGG1 homolog, yeast)-like
chr7_+_34620418 0.06 ENSDART00000081338
slc9a5
solute carrier family 9, subfamily A (NHE5, cation proton antiporter 5), member 5
chr9_+_43799829 0.05 ENSDART00000186240
ube2e3
ubiquitin-conjugating enzyme E2E 3 (UBC4/5 homolog, yeast)
chr8_-_24502997 0.05 ENSDART00000184801
ENSDART00000179794
BX296549.1

chr2_+_53204750 0.05 ENSDART00000163644
zgc:165603
zgc:165603
chr6_+_24420523 0.05 ENSDART00000185461
tgfbr3
transforming growth factor, beta receptor III
chr20_-_13774826 0.05 ENSDART00000063831
opn8c
opsin 8, group member c
chr11_-_16152400 0.05 ENSDART00000123665
arpc4l
actin related protein 2/3 complex, subunit 4, like
chr16_+_13818500 0.05 ENSDART00000135245
flcn
folliculin
chr16_+_35379720 0.05 ENSDART00000170497
si:dkey-34d22.2
si:dkey-34d22.2
chr8_-_50888806 0.05 ENSDART00000053750
acsl2
acyl-CoA synthetase long chain family member 2
chr7_+_26173751 0.04 ENSDART00000065131
si:ch211-196f2.7
si:ch211-196f2.7
chr22_+_7738966 0.04 ENSDART00000147073
si:ch73-44m9.5
si:ch73-44m9.5
chr5_-_68074592 0.04 ENSDART00000165052
ENSDART00000018792
spag7
sperm associated antigen 7
chr16_-_11798994 0.04 ENSDART00000135408
cnfn
cornifelin
chr8_-_24366726 0.04 ENSDART00000182351
ENSDART00000187099
ENSDART00000181534
CR450805.1

chr8_+_28695914 0.04 ENSDART00000033386
ocstamp
osteoclast stimulatory transmembrane protein
chr15_+_45640906 0.04 ENSDART00000149361
ENSDART00000149079
sagb
S-antigen; retina and pineal gland (arrestin) b
chr14_-_4556896 0.04 ENSDART00000044678
ENSDART00000192863
GABRA2
gamma-aminobutyric acid type A receptor alpha2 subunit
chr4_+_47636303 0.03 ENSDART00000167272
ENSDART00000166961
BX324142.1

chr10_+_35358675 0.03 ENSDART00000193263
si:dkey-259j3.5
si:dkey-259j3.5
chr22_-_20011476 0.03 ENSDART00000093312
ENSDART00000093310
celf5a
cugbp, Elav-like family member 5a
chr1_-_19502322 0.03 ENSDART00000181888
ENSDART00000044030
kitb
v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog b
chr8_-_53044089 0.03 ENSDART00000135982
nr6a1a
nuclear receptor subfamily 6, group A, member 1a
chr8_-_25034411 0.03 ENSDART00000135973
nfyal
nuclear transcription factor Y, alpha, like
chr16_-_27677930 0.03 ENSDART00000145991
tbrg4
transforming growth factor beta regulator 4
chr4_-_56954002 0.03 ENSDART00000160934
si:dkey-269o24.1
si:dkey-269o24.1
chr25_+_20715950 0.03 ENSDART00000180223
ergic2
ERGIC and golgi 2
chr20_-_9095105 0.02 ENSDART00000140792
oma1
OMA1 zinc metallopeptidase
chr18_+_17827149 0.02 ENSDART00000190237
ENSDART00000189345
ZNF423
si:ch211-216l23.1
chr12_-_41684729 0.02 ENSDART00000184461
jakmip3
Janus kinase and microtubule interacting protein 3
chr1_-_17715493 0.01 ENSDART00000133027
si:dkey-256e7.8
si:dkey-256e7.8
chr24_+_37640626 0.01 ENSDART00000008047
wdr24
WD repeat domain 24
chr11_+_16152316 0.01 ENSDART00000081054
tada3l
transcriptional adaptor 3 (NGG1 homolog, yeast)-like
chr16_+_54263921 0.01 ENSDART00000002856
drd2l
dopamine receptor D2 like
chr13_-_37229245 0.01 ENSDART00000140923
si:dkeyp-77c8.5
si:dkeyp-77c8.5
chr8_+_25034544 0.01 ENSDART00000123300
ngrn
neugrin, neurite outgrowth associated
chr8_-_12264486 0.00 ENSDART00000091612
ENSDART00000135812
dab2ipa
DAB2 interacting protein a

Network of associatons between targets according to the STRING database.

First level regulatory network of rx1+rx2

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:0035019 somatic stem cell population maintenance(GO:0035019) symmetric cell division(GO:0098725)
0.1 0.3 GO:0007585 respiratory gaseous exchange(GO:0007585) regulation of respiratory gaseous exchange(GO:0043576)
0.1 0.4 GO:1901825 tetraterpenoid metabolic process(GO:0016108) tetraterpenoid biosynthetic process(GO:0016109) carotenoid metabolic process(GO:0016116) carotenoid biosynthetic process(GO:0016117) xanthophyll metabolic process(GO:0016122) xanthophyll biosynthetic process(GO:0016123) zeaxanthin metabolic process(GO:1901825) zeaxanthin biosynthetic process(GO:1901827)
0.1 0.4 GO:0042362 fat-soluble vitamin biosynthetic process(GO:0042362)
0.1 0.2 GO:0098924 retrograde trans-synaptic signaling by soluble gas(GO:0098923) retrograde trans-synaptic signaling by nitric oxide(GO:0098924)
0.1 0.3 GO:0002164 larval development(GO:0002164) larval heart development(GO:0007508)
0.1 0.4 GO:0042984 amyloid precursor protein biosynthetic process(GO:0042983) regulation of amyloid precursor protein biosynthetic process(GO:0042984)
0.0 0.4 GO:0051491 positive regulation of filopodium assembly(GO:0051491)
0.0 0.1 GO:0030043 actin filament fragmentation(GO:0030043)
0.0 0.1 GO:0042755 eating behavior(GO:0042755)
0.0 0.3 GO:0048635 negative regulation of muscle organ development(GO:0048635)
0.0 0.1 GO:0045579 positive regulation of B cell differentiation(GO:0045579)
0.0 0.1 GO:2001223 negative regulation of neuron migration(GO:2001223)
0.0 0.4 GO:0042953 lipoprotein transport(GO:0042953) lipoprotein localization(GO:0044872)
0.0 0.1 GO:0051561 positive regulation of mitochondrial calcium ion concentration(GO:0051561)
0.0 0.1 GO:0003352 regulation of cilium movement(GO:0003352)
0.0 0.3 GO:0090303 positive regulation of wound healing(GO:0090303)
0.0 0.4 GO:0018149 peptide cross-linking(GO:0018149)
0.0 0.1 GO:0060114 reflex(GO:0060004) vestibular reflex(GO:0060005) vestibular receptor cell differentiation(GO:0060114) vestibular receptor cell development(GO:0060118)
0.0 0.2 GO:0014846 esophagus smooth muscle contraction(GO:0014846) glial cell-derived neurotrophic factor receptor signaling pathway(GO:0035860)
0.0 0.3 GO:0000028 ribosomal small subunit assembly(GO:0000028)
0.0 0.3 GO:0070570 regulation of axon regeneration(GO:0048679) regulation of neuron projection regeneration(GO:0070570)
0.0 0.2 GO:0051967 negative regulation of cytosolic calcium ion concentration(GO:0051481) negative regulation of synaptic transmission, glutamatergic(GO:0051967)
0.0 0.3 GO:0048791 calcium ion-regulated exocytosis of neurotransmitter(GO:0048791)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 0.3 GO:0042584 chromaffin granule membrane(GO:0042584)
0.0 0.4 GO:0034362 low-density lipoprotein particle(GO:0034362)
0.0 0.8 GO:0030426 growth cone(GO:0030426)
0.0 0.1 GO:1990246 uniplex complex(GO:1990246)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 0.4 GO:0050251 retinol isomerase activity(GO:0050251) all-trans-retinyl-ester hydrolase, 11-cis retinol forming activity(GO:0052885)
0.1 0.5 GO:0070330 aromatase activity(GO:0070330)
0.1 0.3 GO:0097108 hedgehog family protein binding(GO:0097108)
0.0 0.3 GO:0004392 heme oxygenase (decyclizing) activity(GO:0004392)
0.0 0.4 GO:0004157 dihydropyrimidinase activity(GO:0004157)
0.0 0.2 GO:0004517 nitric-oxide synthase activity(GO:0004517)
0.0 0.3 GO:0016936 galactoside binding(GO:0016936)
0.0 0.2 GO:0004731 purine-nucleoside phosphorylase activity(GO:0004731)
0.0 0.3 GO:0038191 neuropilin binding(GO:0038191)
0.0 0.4 GO:0003810 protein-glutamine gamma-glutamyltransferase activity(GO:0003810)
0.0 0.3 GO:0043236 laminin binding(GO:0043236)
0.0 0.2 GO:0004169 dolichyl-phosphate-mannose-protein mannosyltransferase activity(GO:0004169)
0.0 0.2 GO:0001591 dopamine neurotransmitter receptor activity, coupled via Gi/Go(GO:0001591)
0.0 0.2 GO:0008449 N-acetylglucosamine-6-sulfatase activity(GO:0008449)
0.0 0.3 GO:0005112 Notch binding(GO:0005112)
0.0 0.1 GO:0005223 intracellular cyclic nucleotide activated cation channel activity(GO:0005221) intracellular cAMP activated cation channel activity(GO:0005222) intracellular cGMP activated cation channel activity(GO:0005223) cyclic nucleotide-gated ion channel activity(GO:0043855)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.4 PID CONE PATHWAY Visual signal transduction: Cones
0.0 0.1 SA FAS SIGNALING The TNF-type receptor Fas induces apoptosis on ligand binding.
0.0 0.3 PID HEDGEHOG 2PATHWAY Signaling events mediated by the Hedgehog family

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.4 REACTOME CHYLOMICRON MEDIATED LIPID TRANSPORT Genes involved in Chylomicron-mediated lipid transport
0.0 0.4 REACTOME CRMPS IN SEMA3A SIGNALING Genes involved in CRMPs in Sema3A signaling
0.0 0.3 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
0.0 0.1 REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES Genes involved in Chemokine receptors bind chemokines
0.0 0.1 REACTOME SEMA3A PAK DEPENDENT AXON REPULSION Genes involved in Sema3A PAK dependent Axon repulsion
0.0 0.2 REACTOME LATENT INFECTION OF HOMO SAPIENS WITH MYCOBACTERIUM TUBERCULOSIS Genes involved in Latent infection of Homo sapiens with Mycobacterium tuberculosis
0.0 0.1 REACTOME FGFR4 LIGAND BINDING AND ACTIVATION Genes involved in FGFR4 ligand binding and activation