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PRJEB1986: zebrafish developmental stages transcriptome

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Results for sox1a+sox1b

Z-value: 0.75

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Transcription factors associated with sox1a+sox1b

Gene Symbol Gene ID Gene Info
sox1b
ENSDARG00000008131 SRY-box transcription factor 1b
sox1a
ENSDARG00000069866 SRY-box transcription factor 1a
sox1a
ENSDARG00000110682 SRY-box transcription factor 1a
sox1a
ENSDARG00000114571 SRY-box transcription factor 1a

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
sox1adr11_v1_chr9_+_21722733_217227330.652.8e-03Click!
sox1bdr11_v1_chr1_+_46194333_461943330.532.0e-02Click!

Activity profile of sox1a+sox1b motif

Sorted Z-values of sox1a+sox1b motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr19_+_15440841 3.97 ENSDART00000182329
lin28a
lin-28 homolog A (C. elegans)
chr25_+_18475032 2.51 ENSDART00000073564
tes
testis derived transcript (3 LIM domains)
chr14_+_15768942 2.20 ENSDART00000158998
ergic1
endoplasmic reticulum-golgi intermediate compartment 1
chr19_-_41472228 2.13 ENSDART00000113388
dlx5a
distal-less homeobox 5a
chr25_+_418932 1.81 ENSDART00000059193
prtgb
protogenin homolog b (Gallus gallus)
chr14_+_9421510 1.71 ENSDART00000123652
hmgn6
high mobility group nucleosome binding domain 6
chr19_+_20177887 1.65 ENSDART00000008595
tra2a
transformer 2 alpha homolog
chr5_+_30520249 1.57 ENSDART00000013431
hmbsa
hydroxymethylbilane synthase a
chr18_-_45761868 1.50 ENSDART00000025423
cstf3
cleavage stimulation factor, 3' pre-RNA, subunit 3
chr24_-_9291857 1.44 ENSDART00000149875
tgif1
TGFB-induced factor homeobox 1
chr5_+_51833132 1.33 ENSDART00000167491
papd4
PAP associated domain containing 4
chr4_+_29206813 1.30 ENSDART00000131893
si:dkey-23a23.1
si:dkey-23a23.1
chr2_+_31308587 1.30 ENSDART00000027090
clul1
clusterin-like 1 (retinal)
chr23_+_31815423 1.30 ENSDART00000075730
ENSDART00000075726
myb
v-myb avian myeloblastosis viral oncogene homolog
chr2_+_36620011 1.24 ENSDART00000177428
pak2a
p21 protein (Cdc42/Rac)-activated kinase 2a
chr2_-_31833347 1.18 ENSDART00000109460
nol7
nucleolar protein 7
chr1_+_51479128 1.12 ENSDART00000028018
meis1a
Meis homeobox 1 a
chr6_-_37513133 1.09 ENSDART00000147826
jade3
jade family PHD finger 3
chr22_+_10010292 1.07 ENSDART00000180096
BX324216.4

chr24_+_21092156 1.07 ENSDART00000028542
ccdc191
coiled-coil domain containing 191
chr1_+_59328030 0.99 ENSDART00000172464
CABZ01052576.1

chr18_-_23875219 0.94 ENSDART00000059976
nr2f2
nuclear receptor subfamily 2, group F, member 2
chr2_+_1881334 0.91 ENSDART00000161420
adgrl2b.1
adhesion G protein-coupled receptor L2b, tandem duplicate 1
chr10_-_34889053 0.89 ENSDART00000136966
ccdc169
coiled-coil domain containing 169
chr14_-_17072736 0.83 ENSDART00000106333
phox2bb
paired-like homeobox 2bb
chr9_+_2333927 0.81 ENSDART00000123340
atp5mc3a
ATP synthase membrane subunit c locus 3a
chr5_+_51833305 0.81 ENSDART00000165276
ENSDART00000166443
papd4
PAP associated domain containing 4
chr6_-_22146258 0.79 ENSDART00000181700
gga1
golgi-associated, gamma adaptin ear containing, ARF binding protein 1
chr7_+_50796422 0.78 ENSDART00000123868
dthd1
death domain containing 1
chr14_-_9420911 0.77 ENSDART00000081158
sh3bgrl
SH3 domain binding glutamate-rich protein like
chr7_-_18877109 0.76 ENSDART00000113593
mllt3
MLLT3, super elongation complex subunit
chr20_+_37300699 0.75 ENSDART00000067053
vta1
vesicle (multivesicular body) trafficking 1
chr17_-_19463355 0.75 ENSDART00000045881
dicer1
dicer 1, ribonuclease type III
chr11_+_37612214 0.74 ENSDART00000172899
ENSDART00000077496
hp1bp3
heterochromatin protein 1, binding protein 3
chr7_+_61480296 0.74 ENSDART00000083255
adam19a
ADAM metallopeptidase domain 19a
chr18_-_23874929 0.73 ENSDART00000134910
nr2f2
nuclear receptor subfamily 2, group F, member 2
chr23_-_24247672 0.71 ENSDART00000141552
zbtb17
zinc finger and BTB domain containing 17
chr18_-_81280 0.70 ENSDART00000149810
ENSDART00000149321
hdc
histidine decarboxylase
chr11_+_31324335 0.69 ENSDART00000088093
sipa1l2
signal-induced proliferation-associated 1 like 2
chr3_+_9588705 0.66 ENSDART00000172543
ENSDART00000104875
trap1
TNF receptor-associated protein 1
chr15_-_35410860 0.64 ENSDART00000191267
mecom
MDS1 and EVI1 complex locus
chr16_-_30826712 0.64 ENSDART00000122474
ptk2ab
protein tyrosine kinase 2ab
chr8_+_49096486 0.63 ENSDART00000192998
zgc:56525
zgc:56525
chr20_+_37300296 0.58 ENSDART00000180789
vta1
vesicle (multivesicular body) trafficking 1
chr16_-_21047872 0.56 ENSDART00000131582
cbx3b
chromobox homolog 3b
chr7_-_71331499 0.53 ENSDART00000081245
dhx15
DEAH (Asp-Glu-Ala-His) box helicase 15
chr18_-_6766354 0.51 ENSDART00000132611
adm2b
adrenomedullin 2b
chr20_+_27093042 0.48 ENSDART00000024595
ubr7
ubiquitin protein ligase E3 component n-recognin 7
chr7_+_1383027 0.47 ENSDART00000143762
khnyn
KH and NYN domain containing
chr9_+_25853052 0.47 ENSDART00000127135
gtdc1
glycosyltransferase-like domain containing 1
chr7_+_31425976 0.46 ENSDART00000075400
eif3jb
eukaryotic translation initiation factor 3, subunit Jb
chr23_-_6982966 0.43 ENSDART00000033774
ENSDART00000169965
edem2
ER degradation enhancer, mannosidase alpha-like 2
chr13_+_15581270 0.41 ENSDART00000189880
ENSDART00000190067
ENSDART00000041293
mark3a
MAP/microtubule affinity-regulating kinase 3a
chr21_-_19915757 0.37 ENSDART00000164317
eri1
exoribonuclease 1
chr15_+_24005289 0.36 ENSDART00000088648
myo18ab
myosin XVIIIAb
chr2_+_7715810 0.35 ENSDART00000130781
eif4a2
eukaryotic translation initiation factor 4A, isoform 2
chr15_-_2493771 0.31 ENSDART00000184906
neu4
sialidase 4
chr21_-_19916021 0.27 ENSDART00000065671
eri1
exoribonuclease 1
chr22_+_35131890 0.24 ENSDART00000003303
ENSDART00000130581
rnf13
ring finger protein 13
chr9_+_22359919 0.23 ENSDART00000009591
crygs4
crystallin, gamma S4
chr4_-_9664995 0.22 ENSDART00000180105
ENSDART00000029084
dmtf1
cyclin D binding myb-like transcription factor 1
chr11_+_16216909 0.21 ENSDART00000081035
ENSDART00000147190
slc25a26
solute carrier family 25 (S-adenosylmethionine carrier), member 26
chr16_-_8927425 0.21 ENSDART00000000382
triob
trio Rho guanine nucleotide exchange factor b
chr22_+_9994833 0.20 ENSDART00000172696
ENSDART00000192101
BX324216.1

chr1_-_9134045 0.20 ENSDART00000142132
palb2
partner and localizer of BRCA2
chr2_-_28420415 0.18 ENSDART00000183857
CABZ01056051.1

chr20_-_40370736 0.14 ENSDART00000041229
fabp7b
fatty acid binding protein 7, brain, b
chr11_+_37612672 0.11 ENSDART00000157993
hp1bp3
heterochromatin protein 1, binding protein 3
chr19_+_14109348 0.06 ENSDART00000159015
zgc:175136
zgc:175136
chr20_-_46249185 0.06 ENSDART00000100544
taar10
trace amine-associated receptor 10
chr7_+_57677120 0.05 ENSDART00000110623
arsj
arylsulfatase family, member J
chr7_-_71331690 0.04 ENSDART00000149682
dhx15
DEAH (Asp-Glu-Ala-His) box helicase 15

Network of associatons between targets according to the STRING database.

First level regulatory network of sox1a+sox1b

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
0.6 1.7 GO:0060838 lymphatic endothelial cell fate commitment(GO:0060838) venous endothelial cell differentiation(GO:0060843) venous endothelial cell fate commitment(GO:0060845)
0.3 2.1 GO:0021553 olfactory nerve development(GO:0021553) olfactory nerve morphogenesis(GO:0021627) olfactory nerve formation(GO:0021628)
0.3 1.6 GO:0018160 peptidyl-pyrromethane cofactor linkage(GO:0018160)
0.2 0.7 GO:0030423 targeting of mRNA for destruction involved in RNA interference(GO:0030423)
0.2 0.7 GO:0001692 histamine metabolic process(GO:0001692)
0.2 1.3 GO:0045658 regulation of granulocyte differentiation(GO:0030852) regulation of neutrophil differentiation(GO:0045658)
0.2 0.6 GO:0072196 proximal/distal pattern formation involved in nephron development(GO:0072047) proximal/distal pattern formation involved in pronephric nephron development(GO:0072196)
0.2 0.8 GO:0061549 sympathetic ganglion development(GO:0061549)
0.2 1.4 GO:0021797 forebrain anterior/posterior pattern specification(GO:0021797)
0.1 0.6 GO:0000738 DNA catabolic process, exonucleolytic(GO:0000738)
0.1 1.1 GO:0043982 histone H4-K5 acetylation(GO:0043981) histone H4-K8 acetylation(GO:0043982)
0.1 1.7 GO:0048026 positive regulation of mRNA splicing, via spliceosome(GO:0048026)
0.1 1.3 GO:0032511 late endosome to vacuole transport via multivesicular body sorting pathway(GO:0032511)
0.1 0.9 GO:0070828 heterochromatin organization(GO:0070828)
0.1 0.6 GO:0070307 lens fiber cell development(GO:0070307) lens fiber cell morphogenesis(GO:0070309)
0.0 2.2 GO:0006890 retrograde vesicle-mediated transport, Golgi to ER(GO:0006890)
0.0 0.7 GO:2000404 regulation of T cell migration(GO:2000404)
0.0 0.8 GO:0015986 energy coupled proton transport, down electrochemical gradient(GO:0015985) ATP synthesis coupled proton transport(GO:0015986)
0.0 0.3 GO:0009313 oligosaccharide catabolic process(GO:0009313)
0.0 0.8 GO:0002183 cytoplasmic translational initiation(GO:0002183)
0.0 0.5 GO:0090502 RNA phosphodiester bond hydrolysis, endonucleolytic(GO:0090502)
0.0 1.5 GO:0031123 RNA 3'-end processing(GO:0031123)
0.0 0.7 GO:0090305 nucleic acid phosphodiester bond hydrolysis(GO:0090305)
0.0 1.2 GO:0032147 activation of protein kinase activity(GO:0032147)
0.0 1.1 GO:0009880 embryonic pattern specification(GO:0009880)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.2 0.7 GO:0070578 RISC-loading complex(GO:0070578)
0.1 2.2 GO:0033116 endoplasmic reticulum-Golgi intermediate compartment membrane(GO:0033116)
0.1 1.3 GO:0005771 multivesicular body(GO:0005771)
0.1 0.8 GO:0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)(GO:0000276)
0.0 3.1 GO:0005925 focal adhesion(GO:0005925)
0.0 0.5 GO:0016282 eukaryotic 43S preinitiation complex(GO:0016282)
0.0 2.2 GO:0005681 spliceosomal complex(GO:0005681)
0.0 0.8 GO:0031901 early endosome membrane(GO:0031901)
0.0 1.1 GO:0000123 histone acetyltransferase complex(GO:0000123)
0.0 3.1 GO:0000785 chromatin(GO:0000785)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.3 1.6 GO:0004418 hydroxymethylbilane synthase activity(GO:0004418)
0.2 1.7 GO:0001972 retinoic acid binding(GO:0001972)
0.2 0.7 GO:0032296 ribonuclease III activity(GO:0004525) double-stranded RNA-specific ribonuclease activity(GO:0032296) pre-miRNA binding(GO:0070883)
0.1 1.7 GO:0031492 nucleosomal DNA binding(GO:0031492)
0.0 1.3 GO:0051787 misfolded protein binding(GO:0051787)
0.0 0.4 GO:0004571 mannosyl-oligosaccharide 1,2-alpha-mannosidase activity(GO:0004571) mannosyl-oligosaccharide mannosidase activity(GO:0015924)
0.0 0.2 GO:0051185 coenzyme transporter activity(GO:0051185)
0.0 0.3 GO:0052796 exo-alpha-(2->3)-sialidase activity(GO:0052794) exo-alpha-(2->6)-sialidase activity(GO:0052795) exo-alpha-(2->8)-sialidase activity(GO:0052796)
0.0 0.9 GO:0031491 nucleosome binding(GO:0031491)
0.0 0.6 GO:0000175 3'-5'-exoribonuclease activity(GO:0000175)
0.0 0.4 GO:0050321 tau-protein kinase activity(GO:0050321)
0.0 0.7 GO:0016831 carboxy-lyase activity(GO:0016831)
0.0 0.9 GO:0003724 RNA helicase activity(GO:0003724)
0.0 1.8 GO:0001228 transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001228)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 1.7 PID HNF3A PATHWAY FOXA1 transcription factor network
0.0 1.3 PID IL2 PI3K PATHWAY IL2 signaling events mediated by PI3K
0.0 2.1 PID SMAD2 3NUCLEAR PATHWAY Regulation of nuclear SMAD2/3 signaling
0.0 0.7 PID TAP63 PATHWAY Validated transcriptional targets of TAp63 isoforms

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 1.5 REACTOME PROCESSING OF INTRONLESS PRE MRNAS Genes involved in Processing of Intronless Pre-mRNAs
0.1 1.4 REACTOME DOWNREGULATION OF SMAD2 3 SMAD4 TRANSCRIPTIONAL ACTIVITY Genes involved in Downregulation of SMAD2/3:SMAD4 transcriptional activity
0.1 1.3 REACTOME ENDOSOMAL SORTING COMPLEX REQUIRED FOR TRANSPORT ESCRT Genes involved in Endosomal Sorting Complex Required For Transport (ESCRT)
0.0 0.4 REACTOME CALNEXIN CALRETICULIN CYCLE Genes involved in Calnexin/calreticulin cycle
0.0 1.7 REACTOME TRANSCRIPTIONAL REGULATION OF WHITE ADIPOCYTE DIFFERENTIATION Genes involved in Transcriptional Regulation of White Adipocyte Differentiation
0.0 0.4 REACTOME DEADENYLATION OF MRNA Genes involved in Deadenylation of mRNA
0.0 0.7 REACTOME ACTIVATION OF CHAPERONE GENES BY XBP1S Genes involved in Activation of Chaperone Genes by XBP1(S)
0.0 0.2 REACTOME FANCONI ANEMIA PATHWAY Genes involved in Fanconi Anemia pathway