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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for gbx2

Z-value: 0.81

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Transcription factors associated with gbx2

Gene Symbol Gene ID Gene Info
gbx2
ENSDARG00000002933 gastrulation brain homeobox 2
gbx2
ENSDARG00000116377 gastrulation brain homeobox 2

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
gbx2dr11_v1_chr6_+_16031189_16031189-0.312.1e-01Click!

Activity profile of gbx2 motif

Sorted Z-values of gbx2 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr11_-_6452444 4.46 ENSDART00000137879
ENSDART00000134957
ENSDART00000004483
larp6b
La ribonucleoprotein domain family, member 6b
chr1_-_18811517 2.43 ENSDART00000142026
si:dkey-167i21.2
si:dkey-167i21.2
chr7_-_33684632 2.38 ENSDART00000130553
tle3b
transducin-like enhancer of split 3b
chr7_+_46019780 2.35 ENSDART00000163991
ccne1
cyclin E1
chr7_-_51727760 2.29 ENSDART00000174180
hdac8
histone deacetylase 8
chr17_+_24318753 2.21 ENSDART00000064083
otx1
orthodenticle homeobox 1
chr12_-_35386910 2.16 ENSDART00000153453
camk2g1
calcium/calmodulin-dependent protein kinase (CaM kinase) II gamma 1
chr8_+_23826985 2.10 ENSDART00000187430
mapk14a
mitogen-activated protein kinase 14a
chr6_+_3717613 1.66 ENSDART00000184330
ssb
Sjogren syndrome antigen B (autoantigen La)
chr7_+_59677273 1.60 ENSDART00000039535
ENSDART00000132044
trmt44
tRNA methyltransferase 44 homolog
chr20_-_49889111 1.58 ENSDART00000058858
kif13bb
kinesin family member 13Bb
chr22_+_980290 1.54 ENSDART00000065377
def6b
differentially expressed in FDCP 6b homolog (mouse)
chr19_-_25149034 1.43 ENSDART00000148432
ENSDART00000175266
ptp4a3
protein tyrosine phosphatase type IVA, member 3
chr11_-_12158412 1.43 ENSDART00000147670
npepps
aminopeptidase puromycin sensitive
chr19_-_25149598 1.35 ENSDART00000162917
ptp4a3
protein tyrosine phosphatase type IVA, member 3
chr7_-_58098814 1.23 ENSDART00000147287
ENSDART00000043984
ank2b
ankyrin 2b, neuronal
chr8_+_21229718 1.20 ENSDART00000100222
cry1ba
cryptochrome circadian clock 1ba
chr18_-_16937008 1.15 ENSDART00000100117
ENSDART00000022640
ENSDART00000136541
znf143b
zinc finger protein 143b
chr24_-_33801668 1.10 ENSDART00000079202
abcb8
ATP-binding cassette, sub-family B (MDR/TAP), member 8
chr10_+_43797130 1.07 ENSDART00000027242
nr2f1b
nuclear receptor subfamily 2, group F, member 1b
chr10_-_14929630 1.06 ENSDART00000121892
ENSDART00000044756
ENSDART00000128579
ENSDART00000147653
smad2
SMAD family member 2
chr9_+_23003208 1.06 ENSDART00000021060
eaf2
ELL associated factor 2
chr13_-_33654931 0.93 ENSDART00000020350
snx5
sorting nexin 5
chr14_+_35464994 0.85 ENSDART00000115307
si:ch211-203d1.3
si:ch211-203d1.3
chr11_+_31323746 0.83 ENSDART00000180220
ENSDART00000189937
sipa1l2
signal-induced proliferation-associated 1 like 2
chr8_+_18010568 0.80 ENSDART00000121984
ssbp3b
single stranded DNA binding protein 3b
chr19_-_10330778 0.78 ENSDART00000081465
ENSDART00000136653
ENSDART00000171232
ccdc106b
coiled-coil domain containing 106b
chr4_-_5019113 0.77 ENSDART00000189321
ENSDART00000081990
strip2
striatin interacting protein 2
chr18_+_16750080 0.73 ENSDART00000136320
rnf141
ring finger protein 141
chr11_+_2855430 0.73 ENSDART00000172837
kif21b
kinesin family member 21B
chr15_-_10341048 0.72 ENSDART00000171013
tenm4
teneurin transmembrane protein 4
chr22_-_14272699 0.70 ENSDART00000190121
si:ch211-246m6.5
si:ch211-246m6.5
chr9_+_711822 0.68 ENSDART00000136627
ybey
ybeY metallopeptidase
chr17_+_1496107 0.67 ENSDART00000187804
LO018430.1

chr15_+_34934568 0.66 ENSDART00000165210
zgc:66024
zgc:66024
chr18_+_15644559 0.65 ENSDART00000061794
nr1h4
nuclear receptor subfamily 1, group H, member 4
chr5_-_20123002 0.61 ENSDART00000026516
pxmp2
peroxisomal membrane protein 2
chr5_-_69923241 0.60 ENSDART00000187389
fktn
fukutin
chr5_-_25733745 0.58 ENSDART00000051566
zgc:101016
zgc:101016
chr7_+_20260172 0.58 ENSDART00000012450
dvl2
dishevelled segment polarity protein 2
chr17_+_49281597 0.56 ENSDART00000155599
zgc:113176
zgc:113176
chr11_+_16216909 0.56 ENSDART00000081035
ENSDART00000147190
slc25a26
solute carrier family 25 (S-adenosylmethionine carrier), member 26
chr8_+_20140321 0.54 ENSDART00000012120
acsbg2
acyl-CoA synthetase bubblegum family member 2
chr19_-_20430892 0.51 ENSDART00000111409
tbc1d5
TBC1 domain family, member 5
chr22_-_9861531 0.51 ENSDART00000193197
si:dkey-253d23.2
si:dkey-253d23.2
chr23_+_42254960 0.49 ENSDART00000102980
zcchc11
zinc finger, CCHC domain containing 11
chr4_-_5018705 0.49 ENSDART00000154025
strip2
striatin interacting protein 2
chr3_+_28581397 0.44 ENSDART00000150893
sept12
septin 12
chr18_+_8833251 0.43 ENSDART00000143519
impdh1a
IMP (inosine 5'-monophosphate) dehydrogenase 1a
chr18_+_26895994 0.41 ENSDART00000098347
ch25hl1.2
cholesterol 25-hydroxylase like 1, tandem duplicate 2
chr18_+_17537344 0.40 ENSDART00000025782
nup93
nucleoporin 93
chr9_-_3934963 0.39 ENSDART00000062336
ubr3
ubiquitin protein ligase E3 component n-recognin 3
chr8_-_18010097 0.38 ENSDART00000122730
ENSDART00000133666
acot11b
acyl-CoA thioesterase 11b
chr20_-_18382708 0.36 ENSDART00000170864
ENSDART00000166762
ENSDART00000191333
vipas39
VPS33B interacting protein, apical-basolateral polarity regulator, spe-39 homolog
chr24_-_32582378 0.36 ENSDART00000066590
rdh12l
retinol dehydrogenase 12, like
chr14_-_14643190 0.35 ENSDART00000167119
znf185
zinc finger protein 185 with LIM domain
chr6_-_19270484 0.32 ENSDART00000186894
ENSDART00000188709
zgc:174863
zgc:174863
chr8_+_23105117 0.31 ENSDART00000025171
ythdf1
YTH N(6)-methyladenosine RNA binding protein 1
chr22_+_2512154 0.30 ENSDART00000097363
zgc:173726
zgc:173726
chr24_-_32582880 0.24 ENSDART00000186307
rdh12l
retinol dehydrogenase 12, like
chr19_-_15855427 0.21 ENSDART00000133059
cited4a
Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 4a
chr24_+_33802528 0.21 ENSDART00000136040
ENSDART00000147499
ENSDART00000182322
atg9b
autophagy related 9B
chr24_-_16904234 0.20 ENSDART00000192879
mtrr
5-methyltetrahydrofolate-homocysteine methyltransferase reductase
chr3_+_32118670 0.18 ENSDART00000055287
ENSDART00000111688
zgc:109934
zgc:109934
chr17_+_51499789 0.18 ENSDART00000187701
CABZ01067581.1

chr23_-_333457 0.18 ENSDART00000114486
uhrf1bp1
UHRF1 binding protein 1
chr10_-_39052264 0.17 ENSDART00000144036
igsf5a
immunoglobulin superfamily, member 5a
chr20_-_7128612 0.17 ENSDART00000146755
ENSDART00000036871
si:ch211-121a2.4
si:ch211-121a2.4
chr5_+_57773222 0.16 ENSDART00000135344
ppp2r1ba
protein phosphatase 2, regulatory subunit A, beta a
chr22_+_9862466 0.16 ENSDART00000146864
si:dkey-253d23.3
si:dkey-253d23.3
chr1_-_8000428 0.15 ENSDART00000133098
si:dkey-79f11.5
si:dkey-79f11.5
chr7_-_3927813 0.14 ENSDART00000172991
ENSDART00000173392
si:dkey-88n24.12
si:dkey-88n24.12
chr6_-_42369186 0.14 ENSDART00000039868
usp4
ubiquitin specific peptidase 4 (proto-oncogene)
chr15_-_5524271 0.11 ENSDART00000130297
atg16l2
ATG16 autophagy related 16-like 2 (S. cerevisiae)
chr10_-_11761927 0.10 ENSDART00000138748
adamts6
ADAM metallopeptidase with thrombospondin type 1 motif, 6
chr6_-_39218609 0.10 ENSDART00000133305
os9
osteosarcoma amplified 9, endoplasmic reticulum lectin
chr3_-_10739625 0.09 ENSDART00000156144
zgc:112965
zgc:112965
chr12_+_22560067 0.07 ENSDART00000172066
polr2a
polymerase (RNA) II (DNA directed) polypeptide A
chr12_-_20665865 0.07 ENSDART00000183922
gip
gastric inhibitory polypeptide
chr24_-_25364775 0.07 ENSDART00000151915
ptchd1
patched domain containing 1
chr25_-_31702970 0.06 ENSDART00000153586
lamb4
laminin, beta 4
chr9_+_55154414 0.05 ENSDART00000182924
ANOS1
anosmin 1
chr11_-_422484 0.04 ENSDART00000122253
znf831
zinc finger protein 831
chr19_-_27336092 0.04 ENSDART00000176885
gtf2h4
general transcription factor IIH, polypeptide 4
chr15_-_12270857 0.04 ENSDART00000170093
si:dkey-36i7.3
si:dkey-36i7.3
chr24_-_26995164 0.04 ENSDART00000142864
stag1b
stromal antigen 1b
chr13_+_3252950 0.04 ENSDART00000020671
prph2b
peripherin 2b (retinal degeneration, slow)
chr8_+_31821396 0.03 ENSDART00000077053
plcxd3
phosphatidylinositol-specific phospholipase C, X domain containing 3
chr1_+_40801696 0.03 ENSDART00000147497
cpz
carboxypeptidase Z
chr19_-_5265155 0.03 ENSDART00000145003
prf1.3
perforin 1.3
chr5_+_30624183 0.02 ENSDART00000141444
abcg4a
ATP-binding cassette, sub-family G (WHITE), member 4a
chr8_+_44478294 0.02 ENSDART00000006898
si:ch73-211l2.3
si:ch73-211l2.3
chr12_-_34713690 0.02 ENSDART00000180807
bahcc1b
BAH domain and coiled-coil containing 1b
chr7_-_46019756 0.01 ENSDART00000162583
zgc:162297
zgc:162297
chr5_-_23843636 0.01 ENSDART00000193280
GBGT1 (1 of many)
si:ch211-135f11.5
chr16_-_26296477 0.01 ENSDART00000157553
erfl1
Ets2 repressor factor like 1
chr6_-_46790042 0.01 ENSDART00000156037
igfn1.4
immunoglobulin-like and fibronectin type III domain containing 1, tandem duplicate 4

Network of associatons between targets according to the STRING database.

First level regulatory network of gbx2

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
0.3 2.1 GO:1901741 embryonic cleavage(GO:0040016) positive regulation of myoblast fusion(GO:1901741)
0.3 2.3 GO:0070933 histone H4 deacetylation(GO:0070933)
0.2 1.2 GO:0036371 protein localization to T-tubule(GO:0036371)
0.2 1.6 GO:0072383 plus-end-directed vesicle transport along microtubule(GO:0072383) plus-end-directed organelle transport along microtubule(GO:0072386)
0.2 1.1 GO:0060282 positive regulation of oocyte development(GO:0060282)
0.1 0.7 GO:0032289 central nervous system myelin formation(GO:0032289)
0.1 2.2 GO:0003406 retinal pigment epithelium development(GO:0003406)
0.1 1.3 GO:0055117 regulation of cardiac muscle contraction(GO:0055117)
0.1 0.6 GO:0060049 regulation of protein glycosylation(GO:0060049)
0.1 0.6 GO:0090178 establishment of planar polarity of embryonic epithelium(GO:0042249) establishment of planar polarity involved in neural tube closure(GO:0090177) regulation of establishment of planar polarity involved in neural tube closure(GO:0090178) planar cell polarity pathway involved in neural tube closure(GO:0090179)
0.1 0.4 GO:0051292 nuclear pore complex assembly(GO:0051292)
0.1 0.4 GO:0071596 ubiquitin-dependent protein catabolic process via the N-end rule pathway(GO:0071596)
0.1 2.2 GO:0072114 pronephros morphogenesis(GO:0072114)
0.0 1.4 GO:0043171 peptide catabolic process(GO:0043171)
0.0 1.1 GO:0014812 muscle cell migration(GO:0014812)
0.0 2.4 GO:0000079 regulation of cyclin-dependent protein serine/threonine kinase activity(GO:0000079) regulation of cyclin-dependent protein kinase activity(GO:1904029)
0.0 1.6 GO:0030488 tRNA methylation(GO:0030488)
0.0 1.1 GO:0035476 angioblast cell migration(GO:0035476)
0.0 0.4 GO:0006177 GMP biosynthetic process(GO:0006177) GMP metabolic process(GO:0046037)
0.0 0.6 GO:0050728 negative regulation of inflammatory response(GO:0050728)
0.0 0.7 GO:0051865 protein autoubiquitination(GO:0051865)
0.0 2.4 GO:0090090 negative regulation of canonical Wnt signaling pathway(GO:0090090)
0.0 0.3 GO:0050779 RNA destabilization(GO:0050779) mRNA destabilization(GO:0061157)
0.0 0.5 GO:0042759 long-chain fatty acid biosynthetic process(GO:0042759)
0.0 0.1 GO:0019079 viral genome replication(GO:0019079) negative stranded viral RNA replication(GO:0039689) viral RNA genome replication(GO:0039694) RNA replication(GO:0039703) multi-organism biosynthetic process(GO:0044034)
0.0 0.2 GO:0044805 late nucleophagy(GO:0044805)
0.0 0.1 GO:0030970 retrograde protein transport, ER to cytosol(GO:0030970)
0.0 0.9 GO:0042147 retrograde transport, endosome to Golgi(GO:0042147)
0.0 0.2 GO:0050667 homocysteine metabolic process(GO:0050667)
0.0 1.3 GO:0090630 activation of GTPase activity(GO:0090630)
0.0 0.1 GO:0034122 negative regulation of toll-like receptor signaling pathway(GO:0034122)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.6 2.4 GO:0097134 cyclin E1-CDK2 complex(GO:0097134)
0.1 1.1 GO:0032783 ELL-EAF complex(GO:0032783)
0.1 1.2 GO:0030315 T-tubule(GO:0030315)
0.1 1.1 GO:0071144 SMAD2-SMAD3 protein complex(GO:0071144)
0.0 2.3 GO:0000118 histone deacetylase complex(GO:0000118)
0.0 2.2 GO:0005871 kinesin complex(GO:0005871)
0.0 0.4 GO:0034399 nuclear periphery(GO:0034399)
0.0 0.4 GO:0005940 septin ring(GO:0005940) septin complex(GO:0031105) septin cytoskeleton(GO:0032156)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.5 1.6 GO:0016300 tRNA (uracil) methyltransferase activity(GO:0016300)
0.2 1.1 GO:0070016 armadillo repeat domain binding(GO:0070016)
0.2 2.3 GO:0031078 histone deacetylase activity (H3-K14 specific)(GO:0031078) NAD-dependent histone deacetylase activity (H3-K14 specific)(GO:0032041)
0.1 0.9 GO:0034452 dynactin binding(GO:0034452)
0.1 0.6 GO:0032052 bile acid binding(GO:0032052)
0.1 0.6 GO:0051185 coenzyme transporter activity(GO:0051185)
0.1 0.4 GO:0003938 IMP dehydrogenase activity(GO:0003938)
0.1 1.2 GO:0070001 aspartic-type endopeptidase activity(GO:0004190) aspartic-type peptidase activity(GO:0070001)
0.1 0.4 GO:0000254 C-4 methylsterol oxidase activity(GO:0000254)
0.1 2.1 GO:0004707 MAP kinase activity(GO:0004707)
0.1 2.4 GO:0070491 repressing transcription factor binding(GO:0070491)
0.1 0.4 GO:0036042 long-chain fatty acyl-CoA binding(GO:0036042)
0.1 1.1 GO:0070411 I-SMAD binding(GO:0070411)
0.1 0.3 GO:1990247 N6-methyladenosine-containing RNA binding(GO:1990247)
0.0 0.2 GO:0030586 [methionine synthase] reductase activity(GO:0030586)
0.0 2.2 GO:0004683 calmodulin-dependent protein kinase activity(GO:0004683)
0.0 1.4 GO:0070006 metalloaminopeptidase activity(GO:0070006)
0.0 0.5 GO:0016405 CoA-ligase activity(GO:0016405)
0.0 2.4 GO:0016538 cyclin-dependent protein serine/threonine kinase regulator activity(GO:0016538)
0.0 2.2 GO:0003777 microtubule motor activity(GO:0003777)
0.0 0.4 GO:0017056 structural constituent of nuclear pore(GO:0017056)
0.0 0.6 GO:0005109 frizzled binding(GO:0005109)
0.0 0.9 GO:0008138 protein tyrosine/serine/threonine phosphatase activity(GO:0008138)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.2 5.1 PID PRL SIGNALING EVENTS PATHWAY Signaling events mediated by PRL
0.1 1.1 PID SMAD2 3PATHWAY Regulation of cytoplasmic and nuclear SMAD2/3 signaling
0.0 0.6 PID RXR VDR PATHWAY RXR and RAR heterodimerization with other nuclear receptor
0.0 1.9 PID HDAC CLASSI PATHWAY Signaling events mediated by HDAC Class I
0.0 0.6 PID WNT NONCANONICAL PATHWAY Noncanonical Wnt signaling pathway

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 1.1 REACTOME SIGNALING BY NODAL Genes involved in Signaling by NODAL
0.1 2.4 REACTOME G1 S SPECIFIC TRANSCRIPTION Genes involved in G1/S-Specific Transcription
0.1 1.3 REACTOME RNA POL III TRANSCRIPTION TERMINATION Genes involved in RNA Polymerase III Transcription Termination
0.1 2.3 REACTOME NOTCH1 INTRACELLULAR DOMAIN REGULATES TRANSCRIPTION Genes involved in NOTCH1 Intracellular Domain Regulates Transcription
0.0 0.6 REACTOME SIGNALING BY HIPPO Genes involved in Signaling by Hippo
0.0 0.9 REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS Genes involved in Golgi Associated Vesicle Biogenesis
0.0 0.4 REACTOME TRANSPORT OF RIBONUCLEOPROTEINS INTO THE HOST NUCLEUS Genes involved in Transport of Ribonucleoproteins into the Host Nucleus