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Process View

Danio rerio

17 genes annotated in zebrafish

rhombomere morphogenesis

The process in which the anatomical structure of the rhombomere is generated and organized. Rhombomeres are transverse segments of the developing rhombencephalon. Rhombomeres are lineage restricted, express different genes from one another, and adopt different developmental fates.

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Known genes in the process in zebrafish Include 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 "rhombomere morphogenesis"

Show only novel predictions Show only unknown genes Highlight genes with functional analogs involved in "rhombomere morphogenesis" (in gray)

Name	Description	Probability	Func Analog Organism
pax2a	paired box gene 2a	0.993
dlc	deltaC	0.946
hnf1ba	HNF1 homeobox Ba	0.941
hoxb1b	homeo box B1b	0.938
hoxb2a	homeo box B2a	0.895	Zebrafish
mib	mind bomb	0.879
epha4a	eph receptor A4a	0.861
cdh2	cadherin 2, neuronal	0.768
mafba	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	0.739
wnt1	wingless-type MMTV integration site family, member 1	0.717
dld	deltaD	0.707
aldh1a2	aldehyde dehydrogenase 1 family, member A2	0.616
gli1	GLI-Kruppel family member 1	0.608
gli2a	GLI-Kruppel family member GLI2a	0.592
egr2b	early growth response 2b	0.555
efnb3b	ephrin B3b	0.553
notch1a	notch homolog 1a	0.541	Zebrafish
osr2	odd-skipped related 2 (Drosophila)	0.540
fgf3	fibroblast growth factor 3	0.522
meis2.2	myeloid ecotropic viral integration site 2.2	0.465
dla	deltaA	0.432
onecutl	one cut domain, family member, like	0.398
hoxb1a	homeo box B1a	0.397
neurog1	neurogenin 1	0.382
wt1a	wilms tumor 1a	0.360	Zebrafish
pax8	paired box gene 8	0.344
hoxd3a	homeo box D3a	0.343
hoxa2b	homeo box A2b	0.328	Zebrafish Mouse
gbx1	gastrulation brain homeobox 1	0.313
egr2a	early growth response 2a	0.303	Zebrafish Mouse
neurod4	neurogenic differentiation 4	0.297
fgf8a	fibroblast growth factor 8 a	0.293
mab21l2	mab-21-like 2	0.293
irx3b	iroquois homeobox protein 3b	0.276
sfrp5	secreted frizzled-related protein 5	0.272
crabp2a	cellular retinoic acid binding protein 2, a	0.267
cdx4	caudal type homeo box transcription factor 4	0.248
egr1	early growth response 1	0.244	Zebrafish
rx2	retinal homeobox gene 2	0.244
irx4a	iroquois homeobox protein 4a	0.240
sox9a	SRY-box containing gene 9a	0.227
mecom	MDS1 and EVI1 complex locus	0.226
her8a	hairy-related 8a	0.206
boc	brother of CDO	0.205
rx1	retinal homeobox gene 1	0.202
spry2	sprouty homolog 2	0.198
rerea	arginine-glutamic acid dipeptide (RE) repeats a	0.198
notch3	notch homolog 3	0.195
ephb4a	eph receptor B4a	0.190	Zebrafish
efna5a	ephrin A5a	0.167
jag1b	jagged 1b	0.164
hoxb3a	homeo box B3a	0.163
slc12a2	solute carrier family 12 (potassium/chloride transporters), member 2	0.162
esrrga	estrogen-related receptor gamma a	0.162
msxc	muscle segment homeobox C	0.162
atoh1a	atonal homolog 1a	0.161
wnt3a	wingless-type MMTV integration site family, member 3A	0.160
msxe	muscle segment homeobox E	0.146
hnf1bb	HNF1 homeobox Bb	0.140	Zebrafish
znf703	zinc finger protein 703	0.131
bmp4	bone morphogenetic protein 4	0.127
rest	RE1-silencing transcription factor	0.117
sema3d	semaphorin 3d	0.111
dbx1a	developing brain homeobox 1a	0.107
cdh17	cadherin 17, LI cadherin (liver-intestine)	0.106
btg2	B-cell translocation gene 2	0.103
tbx20	T-box 20	0.101
crb2a	crumbs homolog 2a	0.101
wt1b	wilms tumor 1b	0.099	Zebrafish
foxn4	forkhead box N4	0.098
tbx16	T-box gene 16	0.098
otx1a	orthodenticle homolog 1a	0.096
jag1a	jagged 1a	0.093
gsna	gelsolin a	0.092
tbx2b	T-box 2b	0.091
irx7	iroquois homeobox protein 7	0.088
her1	hairy-related 1	0.085
tbx5a	T-box 5a	0.084
hoxb6a	homeo box B6a	0.080
epha4b	eph receptor A4b	0.080	Zebrafish
fzd8a	frizzled homolog 8a	0.079
evx1	even-skipped homeobox 1	0.079
edn1	endothelin 1	0.077
her6	hairy-related 6	0.076
slc4a2a	solute carrier family 4, anion exchanger, member 2a	0.075
her5	hairy-related 5	0.075
scube2	signal peptide, CUB domain, EGF-like 2	0.075
smad1	MAD homolog 1 (Drosophila)	0.075
pax7a	paired box gene 7a	0.073
bmp2b	bone morphogenetic protein 2b	0.073
zbtb16a	zinc finger and BTB domain containing 16a	0.072
raraa	retinoic acid receptor, alpha a	0.072
foxi1	forkhead box I1	0.070
wnt8b	wingless-type MMTV integration site family, member 8b	0.068
chd	chordin	0.068
fzd5	frizzled homolog 5	0.063
pbx4	pre-B-cell leukemia transcription factor 4	0.062
olig3	oligodendrocyte transcription factor 3	0.060
tfap2a	transcription factor AP-2 alpha	0.060
six4a	sine oculis homeobox homolog 4a	0.059
fn1	fibronectin 1	0.059
lama1	laminin, alpha 1	0.057
has2	hyaluronan synthase 2	0.055
znf503	zinc finger protein 503	0.055
hey1	hairy/enhancer-of-split related with YRPW motif 1	0.055
lmo4a	LIM domain only 4a	0.054
wnt5b	wingless-type MMTV integration site family, member 5b	0.054
rxrga	retinoid x receptor, gamma a	0.053
nkx1.2la	NK1 transcription factor related 2-like,a	0.052
efnb2a	ephrin B2a	0.051
pax3a	paired box gene 3a	0.051
efna3b	ephrin A3b	0.050	Zebrafish
msgn1	mesogenin 1	0.050
fstl1b	follistatin-like 1b	0.050
dab1a	disabled homolog 1a (Drosophila)	0.049
mpp5a	membrane protein, palmitoylated 5a (MAGUK p55 subfamily member 5a)	0.049
sox3	SRY-box containing gene 3	0.048
bambia	BMP and activin membrane-bound inhibitor (Xenopus laevis) homolog a	0.047
efnb1	ephrin B1	0.047	Zebrafish
ptch1	patched 1	0.043
prox2	prospero homeobox 2	0.043
vegfaa	vascular endothelial growth factor Aa	0.042
tcf7	transcription factor 7 (T-cell specific, HMG-box)	0.041
nkd1	naked cuticle homolog 1 (Drosophila)	0.041
rfx2	regulatory factor X, 2 (influences HLA class II expression)	0.041
lhx1b	LIM homeobox 1b	0.039
tll1	tolloid-like 1	0.038
ptf1a	pancreas specific transcription factor, 1a	0.038
im:7156396	im:7156396	0.037
tgfb2	transforming growth factor, beta 2	0.037
pou3f3a	POU class 3 homeobox 3a	0.034
smad3b	MAD, mothers against decapentaplegic homolog 3b (Drosophila)	0.033
hoxb4a	homeo box B4a	0.033
prickle2	prickle-like 2 (Drosophila)	0.032
greb1	growth regulation by estrogen in breast cancer 1	0.030
six2a	sine oculis-related homeobox 2a	0.030
gsx1	GS homeobox 1	0.030
lfng	lunatic fringe homolog	0.030	Zebrafish
shha	sonic hedgehog a	0.029
tp53	tumor protein p53	0.029
ets1a	v-ets erythroblastosis virus E26 oncogene homolog 1a	0.029
sox2	SRY-box containing gene 2	0.029
six3b	sine oculis homeobox homolog 3b	0.027
etv2	ets variant gene 2	0.027
notch2	notch homolog 2	0.027	Zebrafish
cyp26c1	cytochrome P450, family 26, subfamily C, polypeptide 1	0.027
tead3a	TEA domain family member 3 a	0.027
zgc:101606	zgc:101606	0.027
drd2l	dopamine receptor D2 like	0.027
hlxb9la	homeo box HB9 like a	0.027
pax6b	paired box gene 6b	0.026	Rat
hoxa3a	homeo box A3a	0.026
apln	apelin	0.026
ascl1b	achaete-scute complex-like 1b (Drosophila)	0.025
dhrs3a	dehydrogenase/reductase (SDR family) member 3a	0.025
her12	hairy-related 12	0.025
hoxa9a	homeo box A9a	0.025
hoxa4a	homeo box A4a	0.025
mych	myelocytomatosis oncogene homolog	0.025
prtga	protogenin homolog a (Gallus gallus)	0.025
slc4a4a	solute carrier family 4, member 4a	0.024
zgc:55813	zgc:55813	0.024
flh	floating head	0.024
lmx1b.2	LIM homeobox transcription factor 1, beta 2	0.023
sox9b	SRY-box containing gene 9b	0.023
nrarpb	notch-regulated ankyrin repeat protein b	0.023
hs6st1a	heparan sulfate 6-O-sulfotransferase 1a	0.023
sec61al1	Sec61 alpha like 1	0.022
lratb	lecithin retinol acyltransferase b (phosphatidylcholine--retinol O-acyltransferase b)	0.022
vsx2	visual system homeobox 2	0.022
elavl3	ELAV (embryonic lethal, abnormal vision, Drosophila)-like 3 (Hu antigen C)	0.022
mafg1	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein g (avian), 1	0.022
lmx1b.1	LIM homeobox transcription factor 1, beta 1	0.022
tbx18	T-box 18	0.021
rfng	radical fringe homolog (Drosophila)	0.021
pax5	paired box gene 5	0.021
ripply1	ripply1	0.020
cdh23	cadherin-like 23	0.020
jag2	jagged 2	0.020
tcf7l2	transcription factor 7-like 2 (T-cell specific, HMG-box)	0.020
epha7	eph receptor A7	0.020	Zebrafish
sox10	SRY-box containing gene 10	0.020
nr5a2	nuclear receptor subfamily 5, group A, member 2	0.019
fgfr4	fibroblast growth factor receptor 4	0.019
vax2	ventral anterior homeobox 2	0.019
efna5b	ephrin A5b	0.019
atp1a1	ATPase, Na+/K+ transporting, alpha 1 polypeptide	0.019
dusp5	dual specificity phosphatase 5	0.019
traf4a	tnf receptor-associated factor 4a	0.019
try	trypsin	0.019
ren	renin	0.019
axin2	axin 2 (conductin, axil)	0.019
hoxc6a	homeo box C6a	0.018
cdon	cell adhesion molecule-related/down-regulated by oncogenes	0.018
clic4	chloride intracellular channel 4	0.018
ndr2	nodal-related 2	0.018
nrarpa	notch-regulated ankyrin repeat protein a	0.017
si:dkeyp-63d11.7	si:dkeyp-63d11.7	0.017
oep	one-eyed pinhead	0.017
ext1a	exostoses (multiple) 1a	0.017
epb4.1l4	erythrocyte protein band 4.1-like 4	0.017
tbx6	T-box gene 6	0.017
gdf6b	growth differentiation factor 6b	0.017
ptprk	protein tyrosine phosphatase, receptor type, K	0.017
rbm19	RNA binding motif protein 19	0.017
fgf8b	fibroblast growth factor 8 b	0.016
foxa2	forkhead box A2	0.016
irx5b	iroquois homeobox protein 5b	0.016
emx1	empty spiracles homeobox 1	0.016
podxl	podocalyxin-like	0.016
eng2b	engrailed 2b	0.016
znf536	zinc finger protein 536	0.016
klhl31	kelch-like 31 (Drosophila)	0.016
nr2f2	nuclear receptor subfamily 2, group F, member 2	0.015
dzip1	DAZ interacting protein 1	0.015
insm1a	insulinoma-associated 1a	0.015
irx3a	iroquois homeobox protein 3a	0.015
tcf7l1a	transcription factor 7-like 1a (T-cell specific, HMG-box)	0.015
bmp6	bone morphogenetic protein 6	0.015
hsp47	heat shock protein 47	0.015
rel	v-rel reticuloendotheliosis viral oncogene homolog	0.015
zgc:73311	zgc:73311	0.014
casz1	castor zinc finger 1	0.014
smad6a	SMAD family member 6a	0.014
gas6	growth arrest-specific 6	0.014
nkx2.2a	NK2 transcription factor related 2a	0.014
appl2	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2	0.014
dbx1b	developing brain homeobox 1b	0.014
mafk	v-maf musculoaponeurotic fibrosarcoma oncogene homolog K (avian)	0.014	Zebrafish
lhx2b	LIM homeobox 2b	0.014
nav3	neuron navigator 3	0.014
mespb	mesoderm posterior b	0.013
kdr	kinase insert domain receptor (a type III receptor tyrosine kinase)	0.013
phox2a	paired-like homeobox 2a	0.013
hlxb9lb	homeo box HB9 like b	0.013
hs6st2	heparan sulfate 6-O-sulfotransferase 2	0.013
sim1a	single-minded homolog 1a (Drosophila)	0.013
esrra	estrogen-related receptor alpha	0.013
spry1	sprouty homolog 1 (Drosophila)	0.013
gdf6a	growth differentiation factor 6a	0.013
ncam1a	neural cell adhesion molecule 1a	0.013
lhx1a	LIM homeobox 1a	0.013
npb	neuropeptide B	0.013
bmp5	bone morphogenetic protein 5	0.012
snai1b	snail homolog 1b (Drosophila)	0.012
sox4b	SRY-box containing gene 4b	0.012
wnt4a	wingless-type MMTV integration site family, member 4a	0.012
snd1	staphylococcal nuclease domain containing 1	0.012
chrna2a	cholinergic receptor, nicotinic, alpha polypeptide 2a (neuronal)	0.012
sb:cb1008	sb:cb1008	0.012
gcga	glucagon a and glucagon a-like	0.012
sox19b	SRY-box containing gene 19b	0.012
fsta	follistatin a	0.012
hoxc8a	homeo box C8a	0.012
nxn	nucleoredoxin	0.012
dusp2	dual specificity phosphatase 2	0.012
nfatc1	nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1	0.012
smo	smoothened homolog (Drosophila)	0.012
arg2	arginase, type II	0.012
tpbgl	trophoblast glycoprotein-like	0.012
gata5	GATA-binding protein 5	0.011
socs3a	suppressor of cytokine signaling 3a	0.011
foxb1.2	forkhead box B1.2	0.011
gadd45ab	growth arrest and DNA-damage-inducible, alpha, b	0.011
cx39.9	connexin 39.9	0.011
slc12a3	solute carrier family 12 (sodium/chloride transporters), member 3	0.011
sp5l	Sp5 transcription factor-like	0.011
hoxa1a	homeo box A1a	0.011	Zebrafish
nfil3	nuclear factor, interleukin 3 regulated	0.011
ptch2	patched 2	0.011
rarab	retinoic acid receptor, alpha b	0.011
junbl	jun B proto-oncogene, like	0.011
hspa12b	heat shock protein 12B	0.010
gap43	growth associated protein 43	0.010
flr	fleer	0.010
tbx1	T-box 1	0.010
hoxb10a	homeo box B10a	0.010
grap	GRB2-related adaptor protein	0.010
lims1	LIM and senescent cell antigen-like domains 1	0.010
sb:cb81	sb:cb81	0.010
fbln1	fibulin 1	0.010