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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for vsx2

Z-value: 0.37

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Transcription factors associated with vsx2

Gene Symbol Gene ID Gene Info
vsx2
ENSDARG00000005574 visual system homeobox 2

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
vsx2dr11_v1_chr17_-_31659670_31659670-0.806.2e-05Click!

Activity profile of vsx2 motif

Sorted Z-values of vsx2 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr9_-_35633827 1.39 ENSDART00000077745
zp2l1
zona pellucida glycoprotein 2, like 1
chr6_+_28208973 1.21 ENSDART00000171216
ENSDART00000171377
ENSDART00000167389
ENSDART00000166988
LSM2 (1 of many)
si:ch73-14h10.2
chr2_-_15324837 0.93 ENSDART00000015655
tecrl2b
trans-2,3-enoyl-CoA reductase-like 2b
chr20_+_29209767 0.81 ENSDART00000141252
katnbl1
katanin p80 subunit B-like 1
chr20_+_29209926 0.75 ENSDART00000152949
ENSDART00000153016
katnbl1
katanin p80 subunit B-like 1
chr7_+_22313533 0.72 ENSDART00000123457
TMEM102
si:dkey-11f12.2
chr20_+_29209615 0.69 ENSDART00000062350
katnbl1
katanin p80 subunit B-like 1
chr13_-_24717618 0.69 ENSDART00000172156
erlin1
ER lipid raft associated 1
chr16_+_39159752 0.68 ENSDART00000122081
sybu
syntabulin (syntaxin-interacting)
chr22_-_21897203 0.64 ENSDART00000158501
ENSDART00000105566
ENSDART00000136795
gna11a
guanine nucleotide binding protein (G protein), alpha 11a (Gq class)
chr12_-_35386910 0.62 ENSDART00000153453
camk2g1
calcium/calmodulin-dependent protein kinase (CaM kinase) II gamma 1
chr13_-_24717365 0.60 ENSDART00000137934
ENSDART00000003922
erlin1
ER lipid raft associated 1
chr21_-_32781612 0.58 ENSDART00000031028
cnot6a
CCR4-NOT transcription complex, subunit 6a
chr6_-_40713183 0.57 ENSDART00000157113
ENSDART00000154810
ENSDART00000153702
si:ch211-157b11.12
si:ch211-157b11.12
chr19_+_15441022 0.47 ENSDART00000098970
ENSDART00000140276
lin28a
lin-28 homolog A (C. elegans)
chr13_+_38817871 0.47 ENSDART00000187708
col19a1
collagen, type XIX, alpha 1
chr11_+_18873619 0.47 ENSDART00000176141
magi1b
membrane associated guanylate kinase, WW and PDZ domain containing 1b
chr24_+_19415124 0.44 ENSDART00000186931
sulf1
sulfatase 1
chr19_+_15440841 0.44 ENSDART00000182329
lin28a
lin-28 homolog A (C. elegans)
chr14_+_21820034 0.43 ENSDART00000122739
ctbp1
C-terminal binding protein 1
chr23_-_33709964 0.42 ENSDART00000143333
ENSDART00000130338
pou6f1
POU class 6 homeobox 1
chr2_-_26596794 0.41 ENSDART00000134685
ENSDART00000056787
zgc:113691
zgc:113691
chr8_-_15129573 0.40 ENSDART00000142358
bcar3
BCAR3, NSP family adaptor protein
chr20_-_20270191 0.39 ENSDART00000009356
ppp2r5ea
protein phosphatase 2, regulatory subunit B', epsilon isoform a
chr24_-_25004553 0.37 ENSDART00000080997
ENSDART00000136860
zdhhc20b
zinc finger, DHHC-type containing 20b
chr1_+_9290103 0.37 ENSDART00000055009
uncx4.1
Unc4.1 homeobox (C. elegans)
chr24_+_39518774 0.31 ENSDART00000132939
dcun1d3
defective in cullin neddylation 1 domain containing 3
chr8_-_23776399 0.30 ENSDART00000114800
INAVA
si:ch211-163l21.4
chr7_+_36898850 0.30 ENSDART00000113342
tox3
TOX high mobility group box family member 3
chr13_-_36798204 0.29 ENSDART00000012357
sav1
salvador family WW domain containing protein 1
chr21_-_13662237 0.29 ENSDART00000091647
ENSDART00000151547
pnpla7a
patatin-like phospholipase domain containing 7a
chr15_-_9272328 0.28 ENSDART00000172114
calm2a
calmodulin 2a (phosphorylase kinase, delta)
chr3_-_43356082 0.26 ENSDART00000171213
uncx
UNC homeobox
chr20_-_37813863 0.24 ENSDART00000147529
batf3
basic leucine zipper transcription factor, ATF-like 3
chr9_-_50001606 0.22 ENSDART00000161648
ENSDART00000168514
scn1a
sodium channel, voltage-gated, type I, alpha
chr9_-_3934963 0.22 ENSDART00000062336
ubr3
ubiquitin protein ligase E3 component n-recognin 3
chr5_-_25733745 0.21 ENSDART00000051566
zgc:101016
zgc:101016
chr6_-_39198912 0.18 ENSDART00000077938
c1galt1b
core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1b
chr6_-_39199070 0.17 ENSDART00000131793
c1galt1b
core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1b
chr5_+_5398966 0.16 ENSDART00000139553
mapkap1
mitogen-activated protein kinase associated protein 1
chr4_+_3980247 0.15 ENSDART00000049194
gpr37b
G protein-coupled receptor 37b
chr12_+_30367371 0.13 ENSDART00000153364
ccdc186
si:ch211-225b10.4
chr5_-_15851953 0.12 ENSDART00000173101
si:dkey-1k23.3
si:dkey-1k23.3
chr14_+_23874062 0.12 ENSDART00000172149
sh3rf2
SH3 domain containing ring finger 2
chr2_-_35566938 0.11 ENSDART00000029006
ENSDART00000077178
ENSDART00000125298
tnn
tenascin N
chr23_-_24483311 0.11 ENSDART00000185793
ENSDART00000109248
spen
spen family transcriptional repressor
chr14_-_7207961 0.11 ENSDART00000167994
ENSDART00000166532
stox2b
storkhead box 2b
chr4_+_21129752 0.10 ENSDART00000169764
syt1a
synaptotagmin Ia
chr12_+_30367079 0.10 ENSDART00000190112
ccdc186
si:ch211-225b10.4
chr16_-_22930925 0.10 ENSDART00000133819
si:dkey-246i14.3
si:dkey-246i14.3
chr20_-_9436521 0.10 ENSDART00000133000
zgc:101840
zgc:101840
chr24_+_1023839 0.09 ENSDART00000082526
zgc:111976
zgc:111976
chr14_+_23717165 0.07 ENSDART00000006373
ndfip1
Nedd4 family interacting protein 1
chr19_+_2631565 0.07 ENSDART00000171487
fam126a
family with sequence similarity 126, member A
chr25_-_3836597 0.07 ENSDART00000115154
si:ch211-247i17.1
si:ch211-247i17.1
chr5_+_38900249 0.07 ENSDART00000097856
fras1
Fraser extracellular matrix complex subunit 1
chr5_-_16996482 0.06 ENSDART00000144501
galnt9
polypeptide N-acetylgalactosaminyltransferase 9
chr21_+_28958471 0.06 ENSDART00000144331
ENSDART00000005929
ppp3ca
protein phosphatase 3, catalytic subunit, alpha isozyme
chr21_-_13661631 0.06 ENSDART00000184408
pnpla7a
patatin-like phospholipase domain containing 7a
chr12_-_19862912 0.05 ENSDART00000145788
shisa9a
shisa family member 9a
chr21_+_25231160 0.05 ENSDART00000063089
ENSDART00000139127
gng8
guanine nucleotide binding protein (G protein), gamma 8
chr19_-_19379084 0.05 ENSDART00000165206
smarcc1b
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1b
chr25_+_6471401 0.04 ENSDART00000132927
snx33
sorting nexin 33
chr23_-_24195519 0.04 ENSDART00000112370
ENSDART00000180377
ano11
anoctamin 11
chr23_-_24195723 0.04 ENSDART00000145489
ano11
anoctamin 11
chr22_+_9003090 0.04 ENSDART00000106414
rnh1
ribonuclease/angiogenin inhibitor 1
chr12_-_35095414 0.03 ENSDART00000153229
si:dkey-21e13.3
si:dkey-21e13.3
chr11_+_18873113 0.02 ENSDART00000103969
ENSDART00000103968
magi1b
membrane associated guanylate kinase, WW and PDZ domain containing 1b
chr9_+_50001746 0.02 ENSDART00000058892
slc38a11
solute carrier family 38, member 11
chr18_+_28106139 0.02 ENSDART00000089615
kiaa1549lb
KIAA1549-like b
chr19_-_5265155 0.01 ENSDART00000145003
prf1.3
perforin 1.3
chr1_+_55755304 0.00 ENSDART00000144983
tecrb
trans-2,3-enoyl-CoA reductase b
chr1_-_11372456 0.00 ENSDART00000144164
ENSDART00000141238
sdk1b
sidekick cell adhesion molecule 1b
chr9_-_23152092 0.00 ENSDART00000180155
ENSDART00000186935
lypd6b
LY6/PLAUR domain containing 6B
chr3_-_21397304 0.00 ENSDART00000189794
CT573446.1

chr6_-_12275836 0.00 ENSDART00000189980
pkp4
plakophilin 4

Network of associatons between targets according to the STRING database.

First level regulatory network of vsx2

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
0.2 0.7 GO:0060074 synapse maturation(GO:0060074)
0.1 1.3 GO:0032933 response to sterol depletion(GO:0006991) SREBP signaling pathway(GO:0032933) cellular response to sterol depletion(GO:0071501)
0.1 0.4 GO:0021910 smoothened signaling pathway involved in ventral spinal cord patterning(GO:0021910) regulation of myotome development(GO:2000290)
0.0 0.2 GO:0071596 ubiquitin-dependent protein catabolic process via the N-end rule pathway(GO:0071596)
0.0 0.1 GO:0097067 cellular response to thyroid hormone stimulus(GO:0097067)
0.0 0.9 GO:0042761 very long-chain fatty acid biosynthetic process(GO:0042761)
0.0 0.2 GO:0090134 establishment or maintenance of cytoskeleton polarity(GO:0030952) mesendoderm migration(GO:0090133) cell migration involved in mesendoderm migration(GO:0090134)
0.0 0.3 GO:0045116 protein neddylation(GO:0045116)
0.0 0.4 GO:0031952 regulation of protein autophosphorylation(GO:0031952)
0.0 0.4 GO:0033138 positive regulation of peptidyl-serine phosphorylation(GO:0033138)
0.0 0.4 GO:0060158 phospholipase C-activating dopamine receptor signaling pathway(GO:0060158)
0.0 0.6 GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening(GO:0000289)
0.0 0.6 GO:0072114 pronephros morphogenesis(GO:0072114)
0.0 0.4 GO:0018231 peptidyl-L-cysteine S-palmitoylation(GO:0018230) peptidyl-S-diacylglycerol-L-cysteine biosynthetic process from peptidyl-cysteine(GO:0018231)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.6 GO:0030014 CCR4-NOT complex(GO:0030014)
0.0 0.1 GO:0042584 chromaffin granule membrane(GO:0042584)
0.0 0.7 GO:0005881 cytoplasmic microtubule(GO:0005881)
0.0 0.4 GO:0000159 protein phosphatase type 2A complex(GO:0000159)
0.0 0.7 GO:0005834 heterotrimeric G-protein complex(GO:0005834)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 0.6 GO:0031826 type 2A serotonin receptor binding(GO:0031826)
0.0 0.6 GO:0004535 poly(A)-specific ribonuclease activity(GO:0004535)
0.0 0.7 GO:0019894 kinesin binding(GO:0019894)
0.0 0.4 GO:0008449 N-acetylglucosamine-6-sulfatase activity(GO:0008449)
0.0 1.3 GO:0015485 cholesterol binding(GO:0015485)
0.0 0.4 GO:0072542 phosphatase activator activity(GO:0019211) protein phosphatase activator activity(GO:0072542)
0.0 0.1 GO:0042809 vitamin D receptor binding(GO:0042809)
0.0 0.3 GO:0097602 cullin family protein binding(GO:0097602)
0.0 0.1 GO:0050699 WW domain binding(GO:0050699)
0.0 0.9 GO:0016627 oxidoreductase activity, acting on the CH-CH group of donors(GO:0016627)
0.0 0.6 GO:0004683 calmodulin-dependent protein kinase activity(GO:0004683)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.3 PID TCR CALCIUM PATHWAY Calcium signaling in the CD4+ TCR pathway
0.0 0.5 PID HES HEY PATHWAY Notch-mediated HES/HEY network
0.0 0.5 NABA COLLAGENS Genes encoding collagen proteins
0.0 0.4 PID CDC42 REG PATHWAY Regulation of CDC42 activity

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.3 REACTOME SIGNALING BY HIPPO Genes involved in Signaling by Hippo