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PRJNA207719: Tissue specific transcriptome profiling

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Results for rx3

Z-value: 0.79

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Transcription factors associated with rx3

Gene Symbol Gene ID Gene Info
rx3
ENSDARG00000052893 retinal homeobox gene 3

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
rx3dr11_v1_chr21_+_10756154_10756154-0.592.9e-01Click!

Activity profile of rx3 motif

Sorted Z-values of rx3 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr2_-_15324837 0.66 ENSDART00000015655
tecrl2b
trans-2,3-enoyl-CoA reductase-like 2b
chr20_-_40755614 0.61 ENSDART00000061247
cx32.3
connexin 32.3
chr20_-_23426339 0.49 ENSDART00000004625
zar1
zygote arrest 1
chr13_+_22480496 0.49 ENSDART00000136863
ENSDART00000131870
ENSDART00000078720
ENSDART00000078740
ENSDART00000139218
ldb3a
LIM domain binding 3a
chr15_-_21877726 0.48 ENSDART00000127819
ENSDART00000145646
ENSDART00000100897
ENSDART00000144739
zgc:162608
zgc:162608
chr9_-_35633827 0.48 ENSDART00000077745
zp2l1
zona pellucida glycoprotein 2, like 1
chr13_+_22479988 0.48 ENSDART00000188182
ENSDART00000192972
ENSDART00000178372
ldb3a
LIM domain binding 3a
chr10_-_7756865 0.43 ENSDART00000114373
ENSDART00000125407
ENSDART00000016317
loxa
lysyl oxidase a
chr16_-_42894628 0.40 ENSDART00000045600
hfe2
hemochromatosis type 2
chr18_-_5598958 0.37 ENSDART00000161538
cyp1a
cytochrome P450, family 1, subfamily A
chr12_-_35830625 0.37 ENSDART00000180028
CU459056.1

chr10_-_21362071 0.37 ENSDART00000125167
avd
avidin
chr1_-_513762 0.36 ENSDART00000148162
ENSDART00000144606
trmt10c
tRNA methyltransferase 10C, mitochondrial RNase P subunit
chr19_-_25119443 0.35 ENSDART00000148953
ptp4a3
protein tyrosine phosphatase type IVA, member 3
chr10_+_6884627 0.33 ENSDART00000125262
ENSDART00000121729
ENSDART00000105384
ddx4
DEAD (Asp-Glu-Ala-Asp) box polypeptide 4
chr10_-_21362320 0.33 ENSDART00000189789
avd
avidin
chr16_-_42056137 0.32 ENSDART00000102798
zp3d.2
zona pellucida glycoprotein 3d tandem duplicate 2
chr24_+_12835935 0.27 ENSDART00000114762
nanog
nanog homeobox
chr14_-_858985 0.27 ENSDART00000148687
ENSDART00000149375
slc34a1a
solute carrier family 34 (type II sodium/phosphate cotransporter), member 1a
chr8_+_45334255 0.27 ENSDART00000126848
ENSDART00000134161
ENSDART00000142322
ENSDART00000145011
ENSDART00000183560
pabpc1l
poly(A) binding protein, cytoplasmic 1-like
chr10_+_21867307 0.26 ENSDART00000126629
cbln17
cerebellin 17
chr10_-_13343831 0.26 ENSDART00000135941
il11ra
interleukin 11 receptor, alpha
chr21_+_28478663 0.25 ENSDART00000077887
ENSDART00000134150
slc22a6l
solute carrier family 22 (organic anion transporter), member 6, like
chr18_+_8320165 0.24 ENSDART00000092053
chkb
choline kinase beta
chr16_+_33902006 0.24 ENSDART00000161807
ENSDART00000159474
gnl2
guanine nucleotide binding protein-like 2 (nucleolar)
chr10_+_6884123 0.24 ENSDART00000149095
ENSDART00000148772
ENSDART00000149334
ddx4
DEAD (Asp-Glu-Ala-Asp) box polypeptide 4
chr3_+_23692462 0.24 ENSDART00000145934
hoxb7a
homeobox B7a
chr25_-_10503043 0.23 ENSDART00000155404
cox8b
cytochrome c oxidase subunit 8b
chr1_-_18811517 0.23 ENSDART00000142026
si:dkey-167i21.2
si:dkey-167i21.2
chr4_-_9891874 0.23 ENSDART00000067193
adm2a
adrenomedullin 2a
chr9_-_19161982 0.23 ENSDART00000081878
pou1f1
POU class 1 homeobox 1
chr2_+_6253246 0.22 ENSDART00000058256
ENSDART00000076700
zp3b
zona pellucida glycoprotein 3b
chr17_+_24821627 0.22 ENSDART00000112389
wdr43
WD repeat domain 43
chr21_+_25777425 0.22 ENSDART00000021620
cldnd
claudin d
chr13_+_38814521 0.21 ENSDART00000110976
col19a1
collagen, type XIX, alpha 1
chr4_+_306036 0.21 ENSDART00000103659
msgn1
mesogenin 1
chr8_+_25034544 0.21 ENSDART00000123300
ngrn
neugrin, neurite outgrowth associated
chr15_+_5360407 0.21 ENSDART00000110420
or112-1
odorant receptor, family A, subfamily 112, member 1
chr12_+_48803098 0.21 ENSDART00000074768
ppifb
peptidylprolyl isomerase Fb
chr24_-_25144441 0.20 ENSDART00000152104
phldb2b
pleckstrin homology-like domain, family B, member 2b
chr24_+_19415124 0.20 ENSDART00000186931
sulf1
sulfatase 1
chr16_-_16761164 0.20 ENSDART00000135872
si:dkey-27n14.1
si:dkey-27n14.1
chr6_+_41191482 0.19 ENSDART00000000877
opn1mw3
opsin 1 (cone pigments), medium-wave-sensitive, 3
chr10_-_34002185 0.19 ENSDART00000046599
zar1l
zygote arrest 1-like
chr22_+_18477934 0.19 ENSDART00000132684
cilp2
cartilage intermediate layer protein 2
chr23_-_17003533 0.19 ENSDART00000080545
dnmt3bb.2
DNA (cytosine-5-)-methyltransferase 3 beta, duplicate b.2
chr9_-_50001606 0.18 ENSDART00000161648
ENSDART00000168514
scn1a
sodium channel, voltage-gated, type I, alpha
chr9_+_50001746 0.18 ENSDART00000058892
slc38a11
solute carrier family 38, member 11
chr21_-_35419486 0.18 ENSDART00000138529
si:dkeyp-23e4.3
si:dkeyp-23e4.3
chr1_-_5455498 0.17 ENSDART00000040368
ENSDART00000114035
mnx2b
motor neuron and pancreas homeobox 2b
chr11_-_44801968 0.16 ENSDART00000161846
map1lc3c
microtubule-associated protein 1 light chain 3 gamma
chr10_+_36178713 0.16 ENSDART00000140816
or108-3
odorant receptor, family D, subfamily 108, member 3
chr19_-_8768564 0.15 ENSDART00000170416
si:ch73-350k19.1
si:ch73-350k19.1
chr15_+_31344472 0.15 ENSDART00000146695
ENSDART00000159182
ENSDART00000060125
or107-1
odorant receptor, family D, subfamily 107, member 1
chr9_+_22364997 0.15 ENSDART00000188054
ENSDART00000046116
crygs3
crystallin, gamma S3
chr12_-_33357655 0.14 ENSDART00000066233
ENSDART00000148165
slc16a3
solute carrier family 16 (monocarboxylate transporter), member 3
chr1_-_17715493 0.14 ENSDART00000133027
si:dkey-256e7.8
si:dkey-256e7.8
chr19_+_10339538 0.13 ENSDART00000151808
ENSDART00000151235
rcvrn3
recoverin 3
chr20_+_28861629 0.13 ENSDART00000187274
ENSDART00000047826
slc10a1
solute carrier family 10 (sodium/bile acid cotransporter), member 1
chr1_+_35985813 0.13 ENSDART00000179634
ENSDART00000139636
ENSDART00000175902
zgc:152968
zgc:152968
chr17_+_46818521 0.12 ENSDART00000156022
pimr14
Pim proto-oncogene, serine/threonine kinase, related 14
chr2_+_39021282 0.12 ENSDART00000056577
RBP1 (1 of many)
si:ch211-119o8.7
chr6_+_24398907 0.12 ENSDART00000167482
tgfbr3
transforming growth factor, beta receptor III
chr18_+_20560442 0.12 ENSDART00000151990
wee2
WEE1 homolog 2 (S. pombe)
chr14_+_40874608 0.12 ENSDART00000168448
si:ch211-106m9.1
si:ch211-106m9.1
chr20_+_28861435 0.11 ENSDART00000142678
slc10a1
solute carrier family 10 (sodium/bile acid cotransporter), member 1
chr23_-_19230627 0.11 ENSDART00000007122
guca1b
guanylate cyclase activator 1B
chr24_+_13316737 0.11 ENSDART00000191658
SBSPON
somatomedin B and thrombospondin type 1 domain containing
chr20_-_9095105 0.11 ENSDART00000140792
oma1
OMA1 zinc metallopeptidase
chr17_+_8799451 0.11 ENSDART00000189814
ENSDART00000191577
tonsl
tonsoku-like, DNA repair protein
chr22_+_28337429 0.10 ENSDART00000166177
impg2b
interphotoreceptor matrix proteoglycan 2b
chr21_-_32060993 0.10 ENSDART00000131651
si:ch211-160j14.2
si:ch211-160j14.2
chr13_-_31017960 0.10 ENSDART00000145287
wdfy4
WDFY family member 4
chr7_+_34592526 0.10 ENSDART00000173959
fhod1
formin homology 2 domain containing 1
chr16_+_27383717 0.10 ENSDART00000132329
ENSDART00000136256
stx17
syntaxin 17
chr17_+_8799661 0.10 ENSDART00000105326
tonsl
tonsoku-like, DNA repair protein
chr20_-_40758410 0.10 ENSDART00000183031
cx34.5
connexin 34.5
chr14_+_36521005 0.09 ENSDART00000192286
TENM3
si:dkey-237h12.3
chr24_+_1023839 0.09 ENSDART00000082526
zgc:111976
zgc:111976
chr4_-_20292821 0.08 ENSDART00000136069
ENSDART00000192504
cacna2d4a
calcium channel, voltage-dependent, alpha 2/delta subunit 4a
chr22_+_28337204 0.08 ENSDART00000163352
impg2b
interphotoreceptor matrix proteoglycan 2b
chr5_-_67629263 0.08 ENSDART00000133753
zbtb20
zinc finger and BTB domain containing 20
chr22_+_13917311 0.08 ENSDART00000022654
sh3bp4a
SH3-domain binding protein 4a
chr22_-_8725768 0.08 ENSDART00000189873
ENSDART00000181819
si:ch73-27e22.1
si:ch73-27e22.8
si:ch73-27e22.1
si:ch73-27e22.8
chr18_+_48423973 0.08 ENSDART00000184233
ENSDART00000147074
fli1a
Fli-1 proto-oncogene, ETS transcription factor a
chr5_-_27438812 0.08 ENSDART00000078755
drd7
dopamine receptor D7
chr8_+_20776654 0.08 ENSDART00000135850
nfic
nuclear factor I/C
chr16_+_42471455 0.07 ENSDART00000166640
si:ch211-215k15.5
si:ch211-215k15.5
chr2_-_21820697 0.07 ENSDART00000135230
chd7
chromodomain helicase DNA binding protein 7
chr18_-_43884044 0.07 ENSDART00000087382
ddx6
DEAD (Asp-Glu-Ala-Asp) box helicase 6
chr16_+_31804590 0.07 ENSDART00000167321
wnt4b
wingless-type MMTV integration site family, member 4b
chr22_-_10121880 0.07 ENSDART00000002348
rdh5
retinol dehydrogenase 5 (11-cis/9-cis)
chr24_-_4782052 0.06 ENSDART00000149911
agtr1b
angiotensin II receptor, type 1b
chr4_-_4834617 0.06 ENSDART00000141539
coa6
cytochrome c oxidase assembly factor 6
chr14_-_8940499 0.05 ENSDART00000129030
zgc:153681
zgc:153681
chr10_-_2971407 0.05 ENSDART00000132526
marveld2a
MARVEL domain containing 2a
chr15_-_23376541 0.05 ENSDART00000078570
c1qtnf5
C1q and TNF related 5
chr4_-_4834347 0.05 ENSDART00000141803
coa6
cytochrome c oxidase assembly factor 6
chr3_-_50443607 0.05 ENSDART00000074036
rcvrna
recoverin a
chr15_-_5178899 0.05 ENSDART00000132148
or126-4
odorant receptor, family E, subfamily 126, member 4
chr3_+_13929860 0.05 ENSDART00000164179
syce2
synaptonemal complex central element protein 2
chr11_+_30244356 0.04 ENSDART00000036050
ENSDART00000150080
rs1a
retinoschisin 1a
chr5_-_50992690 0.04 ENSDART00000149553
ENSDART00000097460
ENSDART00000192021
hmgcra
3-hydroxy-3-methylglutaryl-CoA reductase a
chr16_-_35975254 0.04 ENSDART00000167537
eva1ba
eva-1 homolog Ba (C. elegans)
chr25_-_18913336 0.04 ENSDART00000171010
parietopsin
parietopsin
chr21_-_37973819 0.04 ENSDART00000133405
ripply1
ripply transcriptional repressor 1
chr18_-_40708537 0.04 ENSDART00000077577
si:ch211-132b12.8
si:ch211-132b12.8
chr11_+_33312601 0.03 ENSDART00000188024
cntnap5l
contactin associated protein-like 5 like
chr6_-_40352215 0.03 ENSDART00000103992
ttll3
tubulin tyrosine ligase-like family, member 3
chr24_-_31425799 0.03 ENSDART00000157998
cngb3.1
cyclic nucleotide gated channel beta 3, tandem duplicate 1
chr12_-_6880694 0.03 ENSDART00000171846
pcdh15b
protocadherin-related 15b
chr20_+_28803977 0.03 ENSDART00000153351
ENSDART00000038149
fntb
farnesyltransferase, CAAX box, beta
chr8_+_17168114 0.03 ENSDART00000183901
cenph
centromere protein H
chr25_+_19666621 0.03 ENSDART00000112746
zgc:171459
zgc:171459
chr17_+_37227936 0.03 ENSDART00000076009
hadhab
hydroxyacyl-CoA dehydrogenase trifunctional multienzyme complex subunit alpha b
chr14_-_7207961 0.03 ENSDART00000167994
ENSDART00000166532
stox2b
storkhead box 2b
chr21_-_22827548 0.02 ENSDART00000079161
angptl5
angiopoietin-like 5
chr7_+_42460302 0.02 ENSDART00000004120
adamts18
ADAM metallopeptidase with thrombospondin type 1 motif, 18
chr14_+_34490445 0.02 ENSDART00000132193
ENSDART00000148044
wnt8a
wingless-type MMTV integration site family, member 8a
chr18_+_2228737 0.02 ENSDART00000165301
rab27a
RAB27A, member RAS oncogene family
chr8_-_39822917 0.01 ENSDART00000067843
zgc:162025
zgc:162025
chr5_+_32009542 0.01 ENSDART00000182025
ENSDART00000179879
scai
suppressor of cancer cell invasion
chr20_-_22476255 0.01 ENSDART00000103510
pdgfra
platelet-derived growth factor receptor, alpha polypeptide
chr5_+_66433287 0.00 ENSDART00000170757
kntc1
kinetochore associated 1

Network of associatons between targets according to the STRING database.

First level regulatory network of rx3

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 0.5 GO:0010872 regulation of cholesterol esterification(GO:0010872) positive regulation of cholesterol esterification(GO:0010873)
0.1 0.4 GO:0090646 mitochondrial tRNA processing(GO:0090646)
0.1 0.2 GO:0048341 paraxial mesoderm morphogenesis(GO:0048340) paraxial mesoderm formation(GO:0048341)
0.1 0.2 GO:0000448 cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)(GO:0000448)
0.0 0.3 GO:0044341 sodium-dependent phosphate transport(GO:0044341)
0.0 0.2 GO:0016338 calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules(GO:0016338)
0.0 0.1 GO:0060631 regulation of meiosis I(GO:0060631)
0.0 0.2 GO:0032776 DNA methylation on cytosine(GO:0032776)
0.0 0.6 GO:0051445 regulation of meiotic cell cycle(GO:0051445)
0.0 0.5 GO:0007339 binding of sperm to zona pellucida(GO:0007339) sperm-egg recognition(GO:0035036) egg coat formation(GO:0035803) regulation of acrosome reaction(GO:0060046) positive regulation of acrosome reaction(GO:2000344)
0.0 0.1 GO:0097067 cellular response to thyroid hormone stimulus(GO:0097067)
0.0 0.4 GO:0018057 peptidyl-lysine oxidation(GO:0018057)
0.0 0.2 GO:0021910 smoothened signaling pathway involved in ventral spinal cord patterning(GO:0021910) regulation of myotome development(GO:2000290)
0.0 0.7 GO:0042761 very long-chain fatty acid biosynthetic process(GO:0042761)
0.0 0.1 GO:0034260 negative regulation of GTPase activity(GO:0034260)
0.0 0.2 GO:0070301 cellular response to hydrogen peroxide(GO:0070301)
0.0 0.2 GO:0015721 bile acid and bile salt transport(GO:0015721)
0.0 0.2 GO:0036368 cone photoresponse recovery(GO:0036368)
0.0 0.1 GO:1990845 adaptive thermogenesis(GO:1990845)
0.0 0.2 GO:0021520 spinal cord motor neuron cell fate specification(GO:0021520)
0.0 0.1 GO:0042362 fat-soluble vitamin biosynthetic process(GO:0042362)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.4 GO:0042645 nucleoid(GO:0009295) mitochondrial nucleoid(GO:0042645)
0.0 0.5 GO:0042627 chylomicron(GO:0042627)
0.0 0.2 GO:0033165 interphotoreceptor matrix(GO:0033165)
0.0 0.2 GO:0005662 DNA replication factor A complex(GO:0005662)
0.0 1.0 GO:0031941 filamentous actin(GO:0031941)
0.0 0.6 GO:0043186 P granule(GO:0043186)
0.0 0.3 GO:0005903 brush border(GO:0005903)
0.0 0.1 GO:0061689 tricellular tight junction(GO:0061689)
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
0.1 0.7 GO:0009374 biotin binding(GO:0009374)
0.1 0.5 GO:0060228 phosphatidylcholine-sterol O-acyltransferase activator activity(GO:0060228)
0.1 0.4 GO:0052905 tRNA (guanine(9)-N(1))-methyltransferase activity(GO:0052905)
0.1 0.4 GO:0070330 aromatase activity(GO:0070330)
0.0 1.0 GO:0051371 muscle alpha-actinin binding(GO:0051371) alpha-actinin binding(GO:0051393)
0.0 0.3 GO:0005436 sodium:phosphate symporter activity(GO:0005436)
0.0 0.2 GO:0008508 bile acid:sodium symporter activity(GO:0008508)
0.0 0.5 GO:0032190 acrosin binding(GO:0032190)
0.0 0.4 GO:0004720 protein-lysine 6-oxidase activity(GO:0004720)
0.0 0.1 GO:0001588 dopamine neurotransmitter receptor activity, coupled via Gs(GO:0001588)
0.0 0.1 GO:0050431 transforming growth factor beta binding(GO:0050431)
0.0 0.3 GO:0008266 poly(U) RNA binding(GO:0008266)
0.0 0.1 GO:0042809 vitamin D receptor binding(GO:0042809)
0.0 0.1 GO:0004945 angiotensin type I receptor activity(GO:0001596) angiotensin type II receptor activity(GO:0004945)
0.0 0.2 GO:0003886 DNA (cytosine-5-)-methyltransferase activity(GO:0003886)
0.0 0.1 GO:0010853 calcium sensitive guanylate cyclase activator activity(GO:0008048) cyclase activator activity(GO:0010853) guanylate cyclase activator activity(GO:0030250)
0.0 0.2 GO:0016018 cyclosporin A binding(GO:0016018)
0.0 0.2 GO:0008449 N-acetylglucosamine-6-sulfatase activity(GO:0008449)
0.0 0.1 GO:0015129 lactate transmembrane transporter activity(GO:0015129)
0.0 0.0 GO:0070738 protein-glycine ligase activity(GO:0070735) tubulin-glycine ligase activity(GO:0070738)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.2 PID CONE PATHWAY Visual signal transduction: Cones
0.0 0.3 PID PRL SIGNALING EVENTS PATHWAY Signaling events mediated by PRL

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.2 REACTOME RECYCLING OF BILE ACIDS AND SALTS Genes involved in Recycling of bile acids and salts
0.0 0.2 REACTOME SYNTHESIS OF PE Genes involved in Synthesis of PE