IMP: Integrative Multi-species Prediction

Danio rerio

18 genes annotated in zebrafish

brain morphogenesis

The process in which the anatomical structures of the brain are generated and organized. The brain is one of the two components of the central nervous system and is the center of thought and emotion. It is responsible for the coordination and control of bodily activities and the interpretation of information from the senses (sight, hearing, smell, etc.).

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Known genes in the process in zebrafishInclude functional analogs

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Gene Predictions

Click on a gene's description to view its network relationships with genes known to be involved in "brain morphogenesis"

Show only novel predictionsShow only unknown genesHighlight genes with functional analogs involved in "brain morphogenesis" (in gray)

Name	Description	Probability	Func Analog Organism
otx2	orthodenticle homolog 2	0.899	Mouse
pax6a	paired box gene 6a	0.857	Fly
robo3	roundabout homolog 3	0.818	Fly
lhx2b	LIM homeobox 2b	0.724
zic4	zic family member 4	0.721	Zebrafish
gli1	GLI-Kruppel family member 1	0.715
six3b	sine oculis homeobox homolog 3b	0.690
six3a	sine oculis homeobox homolog 3a	0.664
dla	deltaA	0.664
chd	chordin	0.660
rx3	retinal homeobox gene 3	0.562
crabp2a	cellular retinoic acid binding protein 2, a	0.507
meis2.1	myeloid ecotropic viral integration site 2.1	0.497
pax2a	paired box gene 2a	0.463	Mouse
mdkb	midkine-related growth factor b	0.442
tfap2a	transcription factor AP-2 alpha	0.433
pax8	paired box gene 8	0.421
fezf2	FEZ family zinc finger 2	0.415
nf1a	neurofibromin 1a	0.415	Mouse
otx1b	orthodenticle homolog 1b	0.357
her6	hairy-related 6	0.355
fgf8b	fibroblast growth factor 8 b	0.354	Mouse
boc	brother of CDO	0.354
gbx2	gastrulation brain homeo box 2	0.349
pafah1b1b	platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit b	0.339
barhl2	BarH-like 2	0.325
ephb3a	eph receptor B3a	0.285
sox11a	SRY-box containing gene 11a	0.282
irx7	iroquois homeobox protein 7	0.275
foxp2	forkhead box P2	0.258
axin2	axin 2 (conductin, axil)	0.253
arnt2	aryl hydrocarbon receptor nuclear translocator 2	0.253
fgfr1b	fibroblast growth factor receptor 1b	0.246
zic2a	zic family member 2 (odd-paired homolog, Drosophila), a	0.245	Zebrafish
sox19a	SRY-box containing gene 19a	0.234
irx1a	iroquois homeobox protein 1, a	0.232
alcamb	activated leukocyte cell adhesion molecule b	0.232
mespa	mesoderm posterior a	0.231
fzd8a	frizzled homolog 8a	0.217
scrt2	scratch homolog 2, zinc finger protein (Drosophila)	0.209
zic3	zic family member 3 heterotaxy 1 (odd-paired homolog, Drosophila)	0.207	Zebrafish
mcoln1	mucolipin 1	0.206
hoxb1b	homeo box B1b	0.193
msxc	muscle segment homeobox C	0.171
nr2e1	nuclear receptor subfamily 2, group E, member 1	0.169
shha	sonic hedgehog a	0.165
sox3	SRY-box containing gene 3	0.164
pcdh8	protocadherin 8	0.163	Zebrafish
meis2.2	myeloid ecotropic viral integration site 2.2	0.161
pcdh10b	protocadherin 10b	0.156	Zebrafish
her15.1	hairy and enhancer of split-related 15.1	0.155	Fly
wnt8b	wingless-type MMTV integration site family, member 8b	0.150
her5	hairy-related 5	0.148	Fly
emx1	empty spiracles homeobox 1	0.144	Mouse
adarb1	adenosine deaminase, RNA-specific, B1	0.140
fabp7a	fatty acid binding protein 7, brain, a	0.139
gli3	GLI-Kruppel family member GLI3	0.131
sox2	SRY-box containing gene 2	0.131	Mouse
gli2a	GLI-Kruppel family member GLI2a	0.128
dbx1a	developing brain homeobox 1a	0.125
zic1	zic family member 1 (odd-paired homolog, Drosophila)	0.122
olig2	oligodendrocyte lineage transcription factor 2	0.120
otpb	orthopedia homolog b	0.118
fgfr2	fibroblast growth factor receptor 2	0.118
rxrga	retinoid x receptor, gamma a	0.114
tbx24	T-box 24	0.112
foxg1a	forkhead box G1a	0.107
lhx5	LIM homeobox 5	0.107
LOC796298	isotocin receptor-like 1	0.106
col14a1	collagen, type XIV, alpha 1	0.106
nr2f2	nuclear receptor subfamily 2, group F, member 2	0.105
id2a	inhibitor of DNA binding 2, dominant negative helix-loop-helix protein, a	0.105	Fly
znf503	zinc finger protein 503	0.078
lmx1b.2	LIM homeobox transcription factor 1, beta 2	0.076
eng2a	engrailed 2a	0.076
ndr2	nodal-related 2	0.076
her8a	hairy-related 8a	0.075	Fly
dmd	dystrophin	0.072
prdm5	PR domain containing 5	0.071
sfrp5	secreted frizzled-related protein 5	0.071
mpped2	metallophosphoesterase domain containing 2	0.068
cdon	cell adhesion molecule-related/down-regulated by oncogenes	0.067
nf1b	neurofibromin 1b	0.067	Mouse
zfp36l1a	zinc finger protein 36, C3H type-like 1a	0.066
chst11	carbohydrate (chondroitin 4) sulfotransferase 11	0.065
fzd7a	frizzled homolog 7a	0.065
lrrtm1	leucine rich repeat transmembrane neuronal 1	0.065
hmgb1a	high-mobility group box 1a	0.064
tll1	tolloid-like 1	0.063
fgf3	fibroblast growth factor 3	0.063
mab21l2	mab-21-like 2	0.063
pax6b	paired box gene 6b	0.063	Fly
pth2r	parathyroid hormone 2 receptor	0.060
ctbp2	C-terminal binding protein 2	0.059
LOC795916	mucolipin-1-like	0.058
pafah1b1a	platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit a	0.058
her1	hairy-related 1	0.058
dync1h1	dynein, cytoplasmic 1, heavy chain 1	0.058
nkx2.1a	NK2 homeobox 1a	0.054
hesx1	homeo box (expressed in ES cells) 1	0.054
zc4h2	zinc finger, C4H2 domain containing	0.053
eng2b	engrailed 2b	0.053
pou3f3b	POU class 3 homeobox 3b	0.051
irx1b	iroquois homeobox protein 1, b	0.049
terfa	telomeric repeat binding factor a	0.049
cc2d2a	coiled-coil and C2 domain containing 2A	0.047
ptenb	phosphatase and tensin homolog B (mutated in multiple advanced cancers 1)	0.047	Mouse
smo	smoothened homolog (Drosophila)	0.046	Mouse
frem2a	Fras1 related extracellular matrix protein 2a	0.046
neurog1	neurogenin 1	0.046
rfx2	regulatory factor X, 2 (influences HLA class II expression)	0.044
msxb	muscle segment homeobox B	0.044
phf21a	PHD finger protein 21A	0.044
smad7	MAD, mothers against decapentaplegic homolog 7 (Drosophila)	0.043
dld	deltaD	0.043
spaw	southpaw	0.042
mycbp2	MYC binding protein 2	0.042
emx3	empty spiracles homeobox 3	0.042
ap4b1l	adaptor-related protein complex 4, beta 1 subunit-like	0.041
ascl1a	achaete-scute complex-like 1a (Drosophila)	0.041
cobl	cordon-bleu homolog (mouse)	0.041
rorab	RAR-related orphan receptor A, paralog b	0.041
lmo4a	LIM domain only 4a	0.040
dscam	Down syndrome cell adhesion molecule	0.040
bbs2	Bardet-Biedl syndrome 2	0.039	Mouse
spry2	sprouty homolog 2	0.039
lama5	laminin, alpha 5	0.038	Fly
pink1	PTEN induced putative kinase 1	0.038
tsc2	tuberous sclerosis 2	0.038
twist3	twist3	0.037
lingo1b	leucine rich repeat and Ig domain containing 1b	0.037
unc5b	unc-5 homolog B (C. elegans)	0.037
her4.2	hairy-related 4.2	0.036	Fly
kbp	kif1-binding protein	0.036
gli2b	GLI-Kruppel family member GLI2b	0.036
tbx16	T-box gene 16	0.036
pvrl1b	poliovirus receptor-related 1b	0.035
tlc	secreted frizzled-related protein	0.035
efhc1	EF-hand domain (C-terminal) containing 1	0.035
esrra	estrogen-related receptor alpha	0.033
rarga	retinoic acid receptor gamma a	0.033
lmx1b.1	LIM homeobox transcription factor 1, beta 1	0.033
cdr2l	cerebellar degeneration-related protein 2-like	0.033
pcdh19	protocadherin 19	0.032
irx3a	iroquois homeobox protein 3a	0.032
fgf8a	fibroblast growth factor 8 a	0.032	Mouse
wu:fb17g07	wu:fb17g07	0.032
sall1a	sal-like 1a (Drosophila)	0.032
olig4	oligodendrocyte transcription factor 4	0.032
pvrl1a	poliovirus receptor-related 1a	0.032
neurod	neurogenic differentiation	0.032
cep290	centrosomal protein 290	0.032
pdcd2	programmed cell death 2	0.032
gria3a	glutamate receptor, ionotropic, AMPA 3a	0.032
fgfr3	fibroblast growth factor receptor 3	0.031
her9	hairy-related 9	0.031
tbx6	T-box gene 6	0.031
atp6v0cb	ATPase, H+ transporting, lysosomal, V0 subunit c, b	0.031
her11	hairy-related 11	0.031
lgi1a	leucine-rich, glioma inactivated 1a	0.030	Zebrafish
rgma	RGM domain family, member A	0.029
lef1	lymphocyte enhancer binding factor 1	0.029
pitx3	paired-like homeodomain transcription factor 3	0.029
prickle1a	prickle-like 1 (Drosophila) a	0.029
socs3a	suppressor of cytokine signaling 3a	0.029
wu:fq41a10	wu:fq41a10	0.029
sox1a	SRY-box containing gene 1a	0.029
grhl2b	grainyhead-like 2b (Drosophila)	0.029
dnmt4	DNA (cytosine-5-)-methyltransferase 4	0.029
gria4b	glutamate receptor, ionotropic, AMPA 4b	0.029
ift80	intraflagellar transport 80 homolog (Chlamydomonas)	0.028
wnt3	wingless-type MMTV integration site family, member 3	0.028
clstn1	calsyntenin 1	0.027
gdf6a	growth differentiation factor 6a	0.026
foxb1.1	forkhead box B1.1	0.026
spry4	sprouty (Drosophila) homolog 4	0.025
pou3f1	POU class 3 homeobox 1	0.025
ptk2.1	protein tyrosine kinase 2a	0.025
gpr98	G protein-coupled receptor 98	0.025
zgc:73142	zgc:73142	0.025
hey1	hairy/enhancer-of-split related with YRPW motif 1	0.024
pikfyve	phosphoinositide kinase, FYVE finger containing	0.024
bhlhe22	basic helix-loop-helix family, member e22	0.024
pdlim7	PDZ and LIM domain 7	0.024
efnb3b	ephrin B3b	0.024
dbx1b	developing brain homeobox 1b	0.024
her12	hairy-related 12	0.024	Fly
sox11b	SRY-box containing gene 11b	0.024
ephb4b	eph receptor B4b	0.024
kif17	kinesin family member 17	0.024
lmo3	LIM domain only 3	0.024
mbd3b	methyl-CpG binding domain protein 3b	0.024
supt5h	suppressor of Ty 5 homolog (S. cerevisiae)	0.023
atoh8	atonal homolog 8	0.023
fermt1	fermitin family member 1	0.023
arl13b	ADP-ribosylation factor-like 13b	0.023
LOC555504	novel protocadherin protein	0.023
ptpro	protein tyrosine phosphatase, receptor type, O	0.023
syne2a	spectrin repeat containing, nuclear envelope 2a	0.023
cox4i2	cytochrome c oxidase subunit IV isoform 2	0.023
bmp2b	bone morphogenetic protein 2b	0.022
wls	wntless homolog (Drosophila)	0.022
mespb	mesoderm posterior b	0.022
zic5	zic family member 5 (odd-paired homolog, Drosophila)	0.022	Zebrafish
epha4a	eph receptor A4a	0.022
ift172	intraflagellar transport 172	0.022
emx2	empty spiracles homeobox 2	0.022
olig3	oligodendrocyte transcription factor 3	0.021
twist1b	twist1b	0.021
jhdm1da	jumonji C domain containing histone demethylase 1 homolog Da (S. cerevisiae)	0.021
foxi1	forkhead box I1	0.021
fgf24	fibroblast growth factor 24	0.021
odc1	ornithine decarboxylase 1	0.021
stk11	serine/threonine kinase 11	0.020
notch3	notch homolog 3	0.020
gpm6ba	glycoprotein M6Ba	0.020
jazf1b	JAZF zinc finger 1b	0.020
junb	jun B proto-oncogene	0.020
ephb4a	eph receptor B4a	0.019
sema6dl	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D, like	0.019	Fly
csnk1g2a	casein kinase 1, gamma 2a	0.019
lratb	lecithin retinol acyltransferase b (phosphatidylcholine--retinol O-acyltransferase b)	0.019
scn1lab	sodium channel, voltage-gated, type I like, alpha b	0.019
tfap2c	transcription factor AP-2 gamma (activating enhancer binding protein 2 gamma)	0.019
sall4	sal-like 4 (Drosophila)	0.019
msgn1	mesogenin 1	0.019
btbd6b	BTB (POZ) domain containing 6b	0.019
twist1a	twist1a	0.019
scube2	signal peptide, CUB domain, EGF-like 2	0.018
cacnb1	calcium channel, voltage-dependent, beta 1 subunit	0.018
col15a1b	collagen, type XV, alpha 1b	0.018
hnrnpk	heterogeneous nuclear ribonucleoprotein K	0.018
prnprs3	prion protein, related sequence 3	0.018
etv5b	ets variant 5b	0.018
tcf7l1a	transcription factor 7-like 1a (T-cell specific, HMG-box)	0.018
tshz1	teashirt family zinc finger 1	0.018
snai1b	snail homolog 1b (Drosophila)	0.018
cetn2	centrin, EF-hand protein, 2	0.018
her3	hairy-related 3	0.017
gdf6b	growth differentiation factor 6b	0.017
popdc1	popeye domain containing 1	0.017
fbxw4	F-box and WD-40 domain protein 4	0.017
alpi	alkaline phosphatase, intestinal	0.017
dact2	dapper homolog 2, antagonist of beta-catenin (xenopus)	0.017
hmgb1b	high-mobility group box 1b	0.017
rarab	retinoic acid receptor, alpha b	0.017
cdkl1	cyclin-dependent kinase-like 1 (CDC2-related kinase)	0.017
lrrc4.1	leucine rich repeat containing 4.1	0.017
tcf7l2	transcription factor 7-like 2 (T-cell specific, HMG-box)	0.017
npb	neuropeptide B	0.016
skia	nuclear oncoprotein skia	0.016
ocrl	oculocerebrorenal syndrome of Lowe	0.016
foxi3a	forkhead box I3a	0.016
nort	notch-regulated transcript	0.016
dpysl3	dihydropyrimidinase-like 3	0.016
odz4	odd Oz/ten-m homolog 4	0.016
prdm8	PR domain containing 8	0.016
mab21l1	mab-21-like 1	0.015
rbms3	RNA binding motif, single stranded interacting protein	0.015
lingo1a	leucine rich repeat and Ig domain containing 1a	0.015
msi1	musashi homolog 1 (Drosophila)	0.015
slc5a5	solute carrier family 5 (sodium iodide symporter), member 5	0.015
dpysl5a	dihydropyrimidinase-like 5a	0.015
sp5l	Sp5 transcription factor-like	0.015
lhx9	LIM homeobox 9	0.015
sumo1	SMT3 suppressor of mif two 3 homolog 1 (yeast)	0.015
isl1	islet1	0.015
dacha	dachshund a	0.015
als2cr4b	amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 4b	0.015
sp8b	sp8 transcription factor b	0.015
appl1	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 1	0.015
dcc	deleted in colorectal carcinoma	0.015
kif5bb	kinesin family member 5B, b	0.014
apc	adenomatosis polyposis coli	0.014
gng7	guanine nucleotide binding protein (G protein), gamma 7	0.014
raraa	retinoic acid receptor, alpha a	0.014
slc4a4b	solute carrier family 4, sodium bicarbonate cotransporter, member 4b	0.014
dpysl2b	dihydropyrimidinase-like 2b	0.014
med12	mediator of RNA polymerase II transcription, subunit 12 homolog	0.014
nrarpb	notch-regulated ankyrin repeat protein b	0.014
rnasel1	ribonuclease like 1	0.014
dip2c	DIP2 disco-interacting protein 2 homolog C (Drosophila)	0.014
axin1	axin 1	0.014
flh	floating head	0.014
arl6ip1	ADP-ribosylation factor-like 6 interacting protein 1	0.014
ispd	isoprenoid synthase domain containing	0.014
ankrd46	ankyrin repeat domain 46	0.014
nkx2.1b	NK2 homeobox 1b	0.014
extl3	exostoses (multiple)-like 3	0.014
tmem88a	transmembrane protein 88 a	0.014
klf7	Kruppel-like factor 7 (ubiquitous)	0.014
aldh1a3	aldehyde dehydrogenase 1 family, member A3	0.013
ywhaqb	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide b	0.013
top2b	topoisomerase (DNA) II beta	0.013
rtn1b	reticulon 1b	0.013
hoxa11a	homeo box A11a	0.013
dctn1a	dynactin 1a	0.013
sox1b	SRY-box containing gene 1b	0.013
si:ch211-239j15.4	si:ch211-239j15.4	0.013
tfap2b	transcription factor AP-2 beta	0.013
hsp90a.2	heat shock protein 90-alpha 2	0.013
LOC100007758	novel protein similar to vertebrate SLIT and NTRK-like family, member 3 (SLITRK3)	0.013
gpc4	glypican 4	0.013
ptch2	patched 2	0.013
dync2i1	dynein, cytoplasmic 2, intermediate chain 1	0.013
nkx2.7	NK2 transcription factor related 7	0.013
irx5a	iroquois homeobox protein 5a	0.013
hoxa9a	homeo box A9a	0.013
gle1	GLE1 RNA export mediator homolog (yeast)	0.012
six1a	sine oculis homeobox homolog 1a	0.012
elk4	ELK4, ETS-domain protein	0.012
prom1b	prominin 1 b	0.012
stk25b	serine/threonine kinase 25b	0.012
cluap1	clusterin associated protein 1	0.012
pknox1.2	pbx/knotted 1 homeobox 1.2	0.012	Zebrafish
anxa1a	annexin A1a	0.012
tmem147	transmembrane protein 147	0.012
angpt2	angiopoietin 2	0.012
ahi1	Abelson helper integration site 1	0.012
ndel1a	nudE nuclear distribution gene E homolog like 1 (A. nidulans) A	0.012
wisp1b	WNT1 inducible signaling pathway protein 1b	0.012
ift88	intraflagellar transport 88 homolog	0.012	Mouse
mfn2	mitofusin 2	0.012
scrt1b	scratch homolog 1, zinc finger protein b (Drosophila)	0.012
nr4a2a	nuclear receptor subfamily 4, group A, member 2a	0.012
celf3	cugbp, Elav-like family member 3	0.012
ift52	intraflagellar transport protein 52	0.012
ascl1b	achaete-scute complex-like 1b (Drosophila)	0.012
foxd3	forkhead box D3	0.012
kif3b	kinesin family member 3B	0.012
sc:d0319	sc:d0319	0.012
msxe	muscle segment homeobox E	0.012
sulf2	sulfatase 2	0.012
hmgb3a	high-mobility group box 3a	0.012
slmapb	sarcolemma associated protein b	0.011
tuba1l	tubulin, alpha 1, like	0.011
gria1a	glutamate receptor, ionotropic, AMPA 1a	0.011
tardbp	TAR DNA binding protein	0.011
syne1a	spectrin repeat containing, nuclear envelope 1a	0.011
dmbx1a	diencephalon/mesencephalon homeobox 1a	0.011
im:7137453	im:7137453	0.011
dnajc24	DnaJ (Hsp40) homolog, subfamily C, member 24	0.011
gro2	groucho 2	0.011
tp53bp2	tumor protein p53 binding protein, 2	0.011
rbpms2	RNA binding protein with multiple splicing 2	0.011
sdcbp	syndecan binding protein (syntenin)	0.011
myh11a	myosin, heavy polypeptide 11, smooth muscle a	0.011
esama	endothelial cell adhesion molecule a	0.011
slc8a4a	solute carrier family 8 (sodium/calcium exchanger), member 4a	0.011
zgc:158569	zgc:158569	0.011
cyp26c1	cytochrome P450, family 26, subfamily C, polypeptide 1	0.011	Zebrafish
rx2	retinal homeobox gene 2	0.011
dhrs3a	dehydrogenase/reductase (SDR family) member 3a	0.011
fam84a	family with sequence similarity 84, member A	0.011
irx4a	iroquois homeobox protein 4a	0.011
sp5	Sp5 transcription factor	0.011
ptprn2	protein tyrosine phosphatase, receptor type, N polypeptide 2	0.011
casp3a	caspase 3, apoptosis-related cysteine protease a	0.011
sesn1	sestrin 1	0.011
sgce	sarcoglycan, epsilon	0.011
zbtb4	zinc finger and BTB domain containing 4	0.011
fryl	furry homolog-like (Drosophila)	0.011
asb11	ankyrin repeat and SOCS box-containing 11	0.011
celsr3	cadherin, EGF LAG seven-pass G-type receptor 3	0.011
mb	myoglobin	0.010
ndrg4	N-myc downstream regulated gene 4	0.010
wnt4a	wingless-type MMTV integration site family, member 4a	0.010
si:dkey-19f21.3	si:dkey-19f21.3	0.010
etfa	electron-transfer-flavoprotein, alpha polypeptide	0.010
dyrk1b	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1B	0.010
auts2	autism susceptibility candidate 2	0.010
pdcd10a	programmed cell death 10a	0.010
six2a	sine oculis-related homeobox 2a	0.010
micall1	MICAL-like 1	0.010
hs6st1a	heparan sulfate 6-O-sulfotransferase 1a	0.010
pcdh7	protocadherin 7	0.010
grnb	granulin b	0.010
ehhadh	enoyl-Coenzyme A, hydratase/3-hydroxyacyl Coenzyme A dehydrogenase	0.010
dlx3b	distal-less homeobox gene 3b	0.010
diaph2	diaphanous homolog 2 (Drosophila)	0.010