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Danio rerio

19 genes annotated in zebrafish

rhombomere development

The process whose specific outcome is the progression of the rhombomere over time, from its formation to the mature structure. 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 development"

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

Name	Description	Probability	Func Analog Organism
pax2a	paired box gene 2a	1.000
fgf8a	fibroblast growth factor 8 a	0.994
fgf3	fibroblast growth factor 3	0.989
hoxa2b	homeo box A2b	0.975	Zebrafish Mouse
epha4a	eph receptor A4a	0.967
dld	deltaD	0.960
hoxb2a	homeo box B2a	0.922	Zebrafish Mouse
cdh2	cadherin 2, neuronal	0.898
hnf1ba	HNF1 homeobox Ba	0.892
wnt1	wingless-type MMTV integration site family, member 1	0.892
hoxb1b	homeo box B1b	0.882
bmp4	bone morphogenetic protein 4	0.875
atoh1a	atonal homolog 1a	0.841
pax8	paired box gene 8	0.832
notch1a	notch homolog 1a	0.831	Zebrafish
dlc	deltaC	0.754
hoxb1a	homeo box B1a	0.749
epha4b	eph receptor A4b	0.737	Zebrafish
neurod4	neurogenic differentiation 4	0.733
bmp2b	bone morphogenetic protein 2b	0.731
onecutl	one cut domain, family member, like	0.649
crabp2a	cellular retinoic acid binding protein 2, a	0.631
mafba	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	0.606
egr1	early growth response 1	0.586	Zebrafish
wnt8b	wingless-type MMTV integration site family, member 8b	0.555
osr2	odd-skipped related 2 (Drosophila)	0.545
tcf7	transcription factor 7 (T-cell specific, HMG-box)	0.492
neurog1	neurogenin 1	0.490
meis2.2	myeloid ecotropic viral integration site 2.2	0.446
mecom	MDS1 and EVI1 complex locus	0.406
irx3b	iroquois homeobox protein 3b	0.405
egr2b	early growth response 2b	0.401
gbx1	gastrulation brain homeobox 1	0.400
hoxd3a	homeo box D3a	0.392
msxc	muscle segment homeobox C	0.391
bmp2a	bone morphogenetic protein 2a	0.361
hoxb3a	homeo box B3a	0.357	Mouse
dbx1a	developing brain homeobox 1a	0.356
mib	mind bomb	0.351
mab21l2	mab-21-like 2	0.351
sfrp5	secreted frizzled-related protein 5	0.347
dla	deltaA	0.345
traf4a	tnf receptor-associated factor 4a	0.330
gbx2	gastrulation brain homeo box 2	0.328	Mouse
pax6b	paired box gene 6b	0.325	Rat
her12	hairy-related 12	0.308
chd	chordin	0.304
lmx1b.2	LIM homeobox transcription factor 1, beta 2	0.302
sox9a	SRY-box containing gene 9a	0.283
wnt3a	wingless-type MMTV integration site family, member 3A	0.261
shha	sonic hedgehog a	0.260
raraa	retinoic acid receptor, alpha a	0.256
aldh1a2	aldehyde dehydrogenase 1 family, member A2	0.253
cyp26c1	cytochrome P450, family 26, subfamily C, polypeptide 1	0.250
egr2a	early growth response 2a	0.241	Zebrafish Mouse
sox2	SRY-box containing gene 2	0.233
her5	hairy-related 5	0.232
fgf8b	fibroblast growth factor 8 b	0.232	Zebrafish
efnb3b	ephrin B3b	0.223
rarab	retinoic acid receptor, alpha b	0.209
osr1	odd-skipped related 1 (Drosophila)	0.202
prdm1a	PR domain containing 1a, with ZNF domain	0.196
hey2	hairy/enhancer-of-split related with YRPW motif 2	0.196
jag2	jagged 2	0.190
h1m	linker histone H1M	0.186
six4b	sine oculis homeobox homolog 4b	0.174
fzd5	frizzled homolog 5	0.173
gli2a	GLI-Kruppel family member GLI2a	0.167
spry2	sprouty homolog 2	0.166
rarga	retinoic acid receptor gamma a	0.165
hoxb4a	homeo box B4a	0.164
ascl1a	achaete-scute complex-like 1a (Drosophila)	0.160
her8a	hairy-related 8a	0.153
wt1b	wilms tumor 1b	0.150	Zebrafish
tll1	tolloid-like 1	0.147
hey1	hairy/enhancer-of-split related with YRPW motif 1	0.145
foxi1	forkhead box I1	0.144
esrrga	estrogen-related receptor gamma a	0.143
tfap2a	transcription factor AP-2 alpha	0.133
nipblb	novel protein similar to vertebrate Nipped-B homolog and nipped-b homolog b (Drosophila)	0.133
lhx2b	LIM homeobox 2b	0.133
msxd	muscle segment homeobox D	0.132
irx7	iroquois homeobox protein 7	0.131
her3	hairy-related 3	0.131
ascl1b	achaete-scute complex-like 1b (Drosophila)	0.128
pcdh10b	protocadherin 10b	0.124
aldh1a3	aldehyde dehydrogenase 1 family, member A3	0.124
pitx3	paired-like homeodomain transcription factor 3	0.120
gata5	GATA-binding protein 5	0.114
lhx1a	LIM homeobox 1a	0.113
lmx1b.1	LIM homeobox transcription factor 1, beta 1	0.111
hoxd4a	homeo box D4a	0.110
meis3	myeloid ecotropic viral integration site 3	0.104
znf503	zinc finger protein 503	0.104
efna5a	ephrin A5a	0.102
lhx1b	LIM homeobox 1b	0.099
tbx16	T-box gene 16	0.097
tbx20	T-box 20	0.095
bambia	BMP and activin membrane-bound inhibitor (Xenopus laevis) homolog a	0.090
hoxb6a	homeo box B6a	0.089
dbx1b	developing brain homeobox 1b	0.089
wnt4a	wingless-type MMTV integration site family, member 4a	0.088
her6	hairy-related 6	0.087
evx1	even-skipped homeobox 1	0.086
phox2a	paired-like homeobox 2a	0.084
ndr2	nodal-related 2	0.082
sema3d	semaphorin 3d	0.080
hoxa3a	homeo box A3a	0.080
hoxa9a	homeo box A9a	0.079
fras1	Fraser syndrome 1	0.078
hoxa4a	homeo box A4a	0.077
gata1a	GATA binding protein 1a	0.077
pea3	ETS-domain transcription factor pea3	0.074
wt1a	wilms tumor 1a	0.073	Zebrafish
prtga	protogenin homolog a (Gallus gallus)	0.073
mespb	mesoderm posterior b	0.073
znfl2a	zinc finger-like gene 2a	0.073
olig3	oligodendrocyte transcription factor 3	0.073
notch3	notch homolog 3	0.072
gdf6a	growth differentiation factor 6a	0.070
efnb2a	ephrin B2a	0.070
nkx1.2la	NK1 transcription factor related 2-like,a	0.068
zgc:101606	zgc:101606	0.067
fgfr4	fibroblast growth factor receptor 4	0.066
tbx6	T-box gene 6	0.065
wnt5b	wingless-type MMTV integration site family, member 5b	0.063
otx1b	orthodenticle homolog 1b	0.061
ptf1a	pancreas specific transcription factor, 1a	0.061
elavl3	ELAV (embryonic lethal, abnormal vision, Drosophila)-like 3 (Hu antigen C)	0.060
rest	RE1-silencing transcription factor	0.060
dact2	dapper homolog 2, antagonist of beta-catenin (xenopus)	0.059
ncs1a	neuronal calcium sensor 1a	0.059
nkd1	naked cuticle homolog 1 (Drosophila)	0.057
ephb3a	eph receptor B3a	0.057	Zebrafish
hoxc6a	homeo box C6a	0.057
irx3a	iroquois homeobox protein 3a	0.056
tbx1	T-box 1	0.056
nadl1.1	neural adhesion molecule L1.1	0.056
msxe	muscle segment homeobox E	0.055
scube2	signal peptide, CUB domain, EGF-like 2	0.055
nova2	neuro-oncological ventral antigen 2	0.055
rxrga	retinoid x receptor, gamma a	0.054
cdx4	caudal type homeo box transcription factor 4	0.054
aplnrb	apelin receptor b	0.054
jag1b	jagged 1b	0.053
hoxc8a	homeo box C8a	0.051
sp5l	Sp5 transcription factor-like	0.050
znf703	zinc finger protein 703	0.049
etv2	ets variant gene 2	0.049
foxn4	forkhead box N4	0.049
esrrb	estrogen-related receptor beta	0.049
sox4b	SRY-box containing gene 4b	0.048
hnf1bb	HNF1 homeobox Bb	0.048	Zebrafish
rx1	retinal homeobox gene 1	0.047
zbtb16a	zinc finger and BTB domain containing 16a	0.046
tgfb2	transforming growth factor, beta 2	0.046
zic2a	zic family member 2 (odd-paired homolog, Drosophila), a	0.046
six4a	sine oculis homeobox homolog 4a	0.046
elk4	ELK4, ETS-domain protein	0.046
hoxa1a	homeo box A1a	0.046	Zebrafish Mouse
ptch1	patched 1	0.045
sb:cb81	sb:cb81	0.045
etv5b	ets variant 5b	0.044
gli1	GLI-Kruppel family member 1	0.043
rx3	retinal homeobox gene 3	0.042
irx1b	iroquois homeobox protein 1, b	0.042
notch1b	notch homolog 1b	0.042
kdr	kinase insert domain receptor (a type III receptor tyrosine kinase)	0.041
gdnf	glial cell derived neurotrophic factor	0.041
nkx2.1a	NK2 homeobox 1a	0.041
crb2a	crumbs homolog 2a	0.041
efnb1	ephrin B1	0.041	Zebrafish
six2a	sine oculis-related homeobox 2a	0.040
efnb2b	ephrin B2b	0.039	Zebrafish
igfbp3	insulin-like growth factor binding protein 3	0.039
gata6	GATA-binding protein 6	0.039
sim1a	single-minded homolog 1a (Drosophila)	0.038
nr2f2	nuclear receptor subfamily 2, group F, member 2	0.038
fsta	follistatin a	0.038
otx1a	orthodenticle homolog 1a	0.037
vegfaa	vascular endothelial growth factor Aa	0.037
wnt2bb	wingless-type MMTV integration site family, member 2Bb	0.036
sox3	SRY-box containing gene 3	0.036
ncam1a	neural cell adhesion molecule 1a	0.036
dhrs3a	dehydrogenase/reductase (SDR family) member 3a	0.035
dusp6	dual specificity phosphatase 6	0.035
sox1a	SRY-box containing gene 1a	0.035
msgn1	mesogenin 1	0.035
nkx2.2a	NK2 transcription factor related 2a	0.034
klhl31	kelch-like 31 (Drosophila)	0.034
msxb	muscle segment homeobox B	0.034
sim2	single-minded homolog 2 (Drosophila)	0.034
im:7156396	im:7156396	0.033
irx4a	iroquois homeobox protein 4a	0.033
barhl2	BarH-like 2	0.033
fgf17	fibroblast growth factor 17	0.033	Zebrafish
lfng	lunatic fringe homolog	0.033	Zebrafish
fzd8a	frizzled homolog 8a	0.033
emx3	empty spiracles homeobox 3	0.033
nrarpb	notch-regulated ankyrin repeat protein b	0.032
fgfr1a	fibroblast growth factor receptor 1a	0.032
ins	preproinsulin	0.032
hspb12	heat shock protein, alpha-crystallin-related, b12	0.031
eng2b	engrailed 2b	0.030
otx5	orthodenticle homolog 5	0.030
prox2	prospero homeobox 2	0.030
emx1	empty spiracles homeobox 1	0.029
jag1a	jagged 1a	0.029
tbx2b	T-box 2b	0.028
med12	mediator of RNA polymerase II transcription, subunit 12 homolog	0.028
axin2	axin 2 (conductin, axil)	0.028
gli2b	GLI-Kruppel family member GLI2b	0.028
otomp	otolith matrix protein	0.028
cdh17	cadherin 17, LI cadherin (liver-intestine)	0.028
meis1	myeloid ecotropic viral integration 1	0.027
ntn1a	netrin 1a	0.027
hoxb5b	homeo box B5b	0.027
gpr126	G protein-coupled receptor 126	0.027
gyltl1b	glycosyltransferase-like 1b	0.027
sfrp1a	secreted frizzled-related protein 1a	0.027
boc	brother of CDO	0.027
hlxb9la	homeo box HB9 like a	0.027
rerea	arginine-glutamic acid dipeptide (RE) repeats a	0.027
epb4.1l4	erythrocyte protein band 4.1-like 4	0.026
ext1a	exostoses (multiple) 1a	0.026
gdf6b	growth differentiation factor 6b	0.026
foxd3	forkhead box D3	0.026
spaw	southpaw	0.026
gsx1	GS homeobox 1	0.026
nav3	neuron navigator 3	0.026
epha7	eph receptor A7	0.025	Zebrafish
irx5b	iroquois homeobox protein 5b	0.025
rtn4r	reticulon 4 receptor	0.025
greb1	growth regulation by estrogen in breast cancer 1	0.025
drd2l	dopamine receptor D2 like	0.024
pbx4	pre-B-cell leukemia transcription factor 4	0.024
nkx2.5	NK2 transcription factor related 5	0.024
tbx5a	T-box 5a	0.024
foxb1.2	forkhead box B1.2	0.024
bmp5	bone morphogenetic protein 5	0.024
ets1a	v-ets erythroblastosis virus E26 oncogene homolog 1a	0.024
hhip	hedgehog interacting protein	0.024
odz4	odd Oz/ten-m homolog 4	0.023
rbm19	RNA binding motif protein 19	0.023
hoxc4a	homeo box C4a	0.023
cobl	cordon-bleu homolog (mouse)	0.022
sp8a	sp8 transcription factor a	0.022
per2	period homolog 2 (Drosophila)	0.022
foxa2	forkhead box A2	0.022
vax1	ventral anterior homeobox 1	0.022
smad3b	MAD, mothers against decapentaplegic homolog 3b (Drosophila)	0.021
rbpja	recombination signal binding protein for immunoglobulin kappa J region a	0.021
her11	hairy-related 11	0.021
ephb4a	eph receptor B4a	0.021	Zebrafish
smoc1	SPARC related modular calcium binding 1	0.020
pax7a	paired box gene 7a	0.020
ren	renin	0.020
btg2	B-cell translocation gene 2	0.020
pax3a	paired box gene 3a	0.019
hoxc6b	homeo box C6b	0.019
hlxb9lb	homeo box HB9 like b	0.019
smad1	MAD homolog 1 (Drosophila)	0.019
si:dkeyp-63d11.7	si:dkeyp-63d11.7	0.019
ephb4b	eph receptor B4b	0.019	Zebrafish
nadl1.2	neural adhesion molecule L1.2	0.019
vsx2	visual system homeobox 2	0.019
insm1b	insulinoma-associated 1b	0.019
dlx4a	distal-less homeobox gene 4a	0.019
pax5	paired box gene 5	0.019
insm1a	insulinoma-associated 1a	0.018
foxa1	forkhead box A1	0.018
six3b	sine oculis homeobox homolog 3b	0.018
fstl1b	follistatin-like 1b	0.018
sox9b	SRY-box containing gene 9b	0.018
hoxa5a	homeo box A5a	0.018
kdrl	kinase insert domain receptor like	0.017
hoxc1a	homeo box C1a	0.017	Zebrafish
sb:cb1008	sb:cb1008	0.017
mafg1	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein g (avian), 1	0.017
her1	hairy-related 1	0.017
rfx2	regulatory factor X, 2 (influences HLA class II expression)	0.017
pcdh8	protocadherin 8	0.016
hoxb6b	homeo box B6b	0.016
sox17	SRY-box containing gene 17	0.016
gsna	gelsolin a	0.016
fzd10	frizzled homolog 10	0.015
vasp	vasodilator-stimulated phosphoprotein	0.015
rel	v-rel reticuloendotheliosis viral oncogene homolog	0.015
bon	bonnie and clyde	0.015
snai1b	snail homolog 1b (Drosophila)	0.015
rela	v-rel reticuloendotheliosis viral oncogene homolog A	0.015
ctsl1b	cathepsin L, 1 b	0.015
hmgcrb	3-hydroxy-3-methylglutaryl-Coenzyme A reductase b	0.015
gata2a	GATA-binding protein 2a	0.015
crim1	cysteine rich transmembrane BMP regulator 1 (chordin like)	0.015
fgf18a	fibroblast growth factor 18a	0.015
plekhh1	pleckstrin homology domain containing, family H (with MyTH4 domain) member 1	0.015
spry1	sprouty homolog 1 (Drosophila)	0.014
thsd7a	thrombospondin, type I, domain containing 7A	0.014
hs6st1a	heparan sulfate 6-O-sulfotransferase 1a	0.014
fn1	fibronectin 1	0.014
dab1a	disabled homolog 1a (Drosophila)	0.014
meis4.1a	myeloid ecotropic viral integration site 4.1a	0.014
pdlim3a	PDZ and LIM domain 3a	0.014
fign	fidgetin	0.014
zic1	zic family member 1 (odd-paired homolog, Drosophila)	0.014
olfm1a	olfactomedin 1a	0.014
has2	hyaluronan synthase 2	0.014
pou3f3a	POU class 3 homeobox 3a	0.013
ets2	v-ets erythroblastosis virus E26 oncogene homolog 2 (avian)	0.013
fgfr1b	fibroblast growth factor receptor 1b	0.013
tcf7l2	transcription factor 7-like 2 (T-cell specific, HMG-box)	0.013
otx2	orthodenticle homolog 2	0.013
tgfbi	transforming growth factor, beta-induced	0.013
six3a	sine oculis homeobox homolog 3a	0.013
pax6a	paired box gene 6a	0.013	Rat
prdm16	PR domain containing 16	0.012
bmp7b	bone morphogenetic protein 7b	0.012
otpb	orthopedia homolog b	0.012
dlx4b	distal-less homeobox gene 4b	0.012
rx2	retinal homeobox gene 2	0.012
esrra	estrogen-related receptor alpha	0.012
smchd1	structural maintenance of chromosomes flexible hinge domain containing 1	0.012
ncor1	nuclear receptor co-repressor 1	0.011
szl	sizzled	0.011
hs6st1b	heparan sulfate 6-O-sulfotransferase 1b	0.011
dusp5	dual specificity phosphatase 5	0.011
fgf4	fibroblast growth factor 4	0.011	Zebrafish
foxg1a	forkhead box G1a	0.011
drd1	dopamine receptor D1	0.011
hesx1	homeo box (expressed in ES cells) 1	0.011
gna12	guanine nucleotide binding protein (G protein) alpha 12	0.011
lama1	laminin, alpha 1	0.011
ncor2	nuclear receptor co-repressor 2	0.011
dlx3b	distal-less homeobox gene 3b	0.011
sp7	Sp7 transcription factor	0.011
tfap2c	transcription factor AP-2 gamma (activating enhancer binding protein 2 gamma)	0.011
dynll2a	dynein, light chain, LC8-type 2a	0.011
appl2	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2	0.011
apln	apelin	0.011
btbd6a	BTB (POZ) domain containing 6a	0.011
fgf18b	fibroblast growth factor 18b	0.011	Zebrafish
alcama	activated leukocyte cell adhesion molecule a	0.010
clybl	citrate lyase beta-like	0.010
nrp1a	neuropilin 1a	0.010
irx1a	iroquois homeobox protein 1, a	0.010
pcdh19	protocadherin 19	0.010
sox21a	SRY-box containing gene 21a	0.010
nr5a2	nuclear receptor subfamily 5, group A, member 2	0.010
slc12a2	solute carrier family 12 (potassium/chloride transporters), member 2	0.010
sema3ab	semaphorin 3ab	0.010
atoh1b	atonal homolog 1b	0.010