IMP

Process View

Mus musculus

16 genes annotated in mouse

retina layer formation

The process in which the vertebrate retina is organized into three laminae: the outer nuclear layer (ONL), which contains photoreceptor nuclei; the inner nuclear layer (INL), which contains amacrine, bipolar and horizontal cells; and the retinal ganglion cell (RGC) layer. Between the inner and outer nuclear layers, the outer plexiform layer (OPL) contains connections between the photoreceptors and bipolar and horizontal cells. The inner plexiform layer (IPL) is positioned between the INL and the ganglion cell layer and contains the dendrites of RGCs and processes of bipolar and amacrine cells. Spanning all layers of the retina are the radially oriented Mueller glia.

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Known genes in the process in mouse 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 "retina layer formation"

Show only novel predictions Show only unknown genes Highlight genes with functional analogs involved in "retina layer formation" (in gray)

Name	Description	Probability	Func Analog Organism
Shh	sonic hedgehog	0.884
Neurod1	neurogenic differentiation 1	0.869	Mouse
Pax6	paired box gene 6	0.854
Otx2	orthodenticle homolog 2 (Drosophila)	0.794
Pitx2	paired-like homeodomain transcription factor 2	0.770
Neurog2	neurogenin 2	0.534	Mouse
Ascl1	achaete-scute complex homolog 1 (Drosophila)	0.417
Isl1	ISL1 transcription factor, LIM/homeodomain	0.394	Mouse
Neurod4	neurogenic differentiation 4	0.317	Mouse
Pax3	paired box gene 3	0.312
Gbx2	gastrulation brain homeobox 2	0.267
Cdk5r1	cyclin-dependent kinase 5, regulatory subunit 1 (p35)	0.234	Zebrafish
Foxc1	forkhead box C1	0.183
Vegfa	vascular endothelial growth factor A	0.174
Gli3	GLI-Kruppel family member GLI3	0.154
Fgf8	fibroblast growth factor 8	0.148
Hand2	heart and neural crest derivatives expressed transcript 2	0.147	Mouse
Sox11	SRY-box containing gene 11	0.145
Tcfap2a	transcription factor AP-2, alpha	0.144	Human
Dnmt3a	DNA methyltransferase 3A	0.130
Emx2	empty spiracles homolog 2 (Drosophila)	0.120
Pou4f2	POU domain, class 4, transcription factor 2	0.112
Atoh7	atonal homolog 7 (Drosophila)	0.111	Zebrafish Mouse
Fgfr2	fibroblast growth factor receptor 2	0.107
Ptpn11	protein tyrosine phosphatase, non-receptor type 11	0.101
Bmp4	bone morphogenetic protein 4	0.100
Hoxd13	homeobox D13	0.098
Nkx2-5	NK2 transcription factor related, locus 5 (Drosophila)	0.097
Lhx9	LIM homeobox protein 9	0.093	Mouse
Gata4	GATA binding protein 4	0.093
Foxc2	forkhead box C2	0.091
Ptf1a	pancreas specific transcription factor, 1a	0.087
Plxnd1	plexin D1	0.084
Hand1	heart and neural crest derivatives expressed transcript 1	0.082	Mouse
Kiss1	KiSS-1 metastasis-suppressor	0.080
Neurog3	neurogenin 3	0.072	Mouse
Onecut1	one cut domain, family member 1	0.071
Pitx1	paired-like homeodomain transcription factor 1	0.069
Lhx3	LIM homeobox protein 3	0.069	Mouse
Insm1	insulinoma-associated 1	0.069
Msx1	homeobox, msh-like 1	0.065
Lhx1	LIM homeobox protein 1	0.063
Hoxa1	homeobox A1	0.058
Msx2	homeobox, msh-like 2	0.055
Gdnf	glial cell line derived neurotrophic factor	0.054
En1	engrailed 1	0.054
Dab1	disabled homolog 1 (Drosophila)	0.054
Mdm2	transformed mouse 3T3 cell double minute 2	0.051
Sox2	SRY-box containing gene 2	0.047
Pax2	paired box gene 2	0.045
Tctn1	tectonic family member 1	0.042
Nhlh1	nescient helix loop helix 1	0.040	Mouse
Mks1	Meckel syndrome, type 1	0.039
Hoxd11	homeobox D11	0.038
Zic1	zinc finger protein of the cerebellum 1	0.037
Ret	ret proto-oncogene	0.036
Prph2	peripherin 2	0.035
Six3	sine oculis-related homeobox 3 homolog (Drosophila)	0.034
Six6	sine oculis-related homeobox 6 homolog (Drosophila)	0.034
Tlx3	T-cell leukemia, homeobox 3	0.034
Mab21l2	mab-21-like 2 (C. elegans)	0.034
Tbx3	T-box 3	0.034
Bmpr1a	bone morphogenetic protein receptor, type 1A	0.033
Arx	aristaless related homeobox	0.033
Lhx4	LIM homeobox protein 4	0.033	Mouse
Pdx1	pancreatic and duodenal homeobox 1	0.030
Acvr1	activin A receptor, type 1	0.030
Tbx1	T-box 1	0.028
Hoxa11	homeobox A11	0.028
Nr5a1	nuclear receptor subfamily 5, group A, member 1	0.027
Gdf11	growth differentiation factor 11	0.025
Sox9	SRY-box containing gene 9	0.025
Mecom	MDS1 and EVI1 complex locus	0.025
Fgfr3	fibroblast growth factor receptor 3	0.025
Srrm4	serine/arginine repetitive matrix 4	0.025
Foxg1	forkhead box G1	0.025
Tal1	T-cell acute lymphocytic leukemia 1	0.025	Mouse
Meox2	mesenchyme homeobox 2	0.024
Prox1	prospero-related homeobox 1	0.023
Sema3f	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F	0.023
Sox3	SRY-box containing gene 3	0.023
Ror2	receptor tyrosine kinase-like orphan receptor 2	0.023
Neurog1	neurogenin 1	0.023	Mouse
Pdgfra	platelet derived growth factor receptor, alpha polypeptide	0.023
T	brachyury	0.022
Pou4f3	POU domain, class 4, transcription factor 3	0.022
Pou3f3	POU domain, class 3, transcription factor 3	0.022
Gfra1	glial cell line derived neurotrophic factor family receptor alpha 1	0.022
Sim2	single-minded homolog 2 (Drosophila)	0.022
Sall3	sal-like 3 (Drosophila)	0.022
Mmp24	matrix metallopeptidase 24	0.022
Cdkn2a	cyclin-dependent kinase inhibitor 2A	0.022
Fgf9	fibroblast growth factor 9	0.021
Phox2b	paired-like homeobox 2b	0.021
Igdcc3	immunoglobulin superfamily, DCC subclass, member 3	0.021
Runx2	runt related transcription factor 2	0.021
Foxh1	forkhead box H1	0.021
Hspg2	perlecan (heparan sulfate proteoglycan 2)	0.021
Msi1	Musashi homolog 1(Drosophila)	0.021
Pkd1	polycystic kidney disease 1 homolog	0.020
Hoxb4	homeobox B4	0.020
Tal2	T-cell acute lymphocytic leukemia 2	0.020	Mouse
Fgfr1	fibroblast growth factor receptor 1	0.020
Gata1	GATA binding protein 1	0.020
Pthlh	parathyroid hormone-like peptide	0.020
Ptprb	protein tyrosine phosphatase, receptor type, B	0.020
Igfbpl1	insulin-like growth factor binding protein-like 1	0.019
Adra2a	adrenergic receptor, alpha 2a	0.019
Gsc	goosecoid homeobox	0.019
Mip	major intrinsic protein of eye lens fiber	0.019
Runx1t1	runt-related transcription factor 1; translocated to, 1 (cyclin D-related)	0.018
Jag1	jagged 1	0.018
Ssbp2	single-stranded DNA binding protein 2	0.018
Col22a1	collagen, type XXII, alpha 1	0.018
Evx1	even skipped homeotic gene 1 homolog	0.018
Celf4	CUGBP, Elav-like family member 4	0.018
Tcfap2b	transcription factor AP-2 beta	0.018
Col2a1	collagen, type II, alpha 1	0.018
Cbfa2t3	core-binding factor, runt domain, alpha subunit 2, translocated to, 3 (human)	0.017
Fgf17	fibroblast growth factor 17	0.017
Cdk5r2	cyclin-dependent kinase 5, regulatory subunit 2 (p39)	0.017
Wnt7a	wingless-related MMTV integration site 7A	0.017
Uncx	UNC homeobox	0.017
Nkx3-2	NK3 homeobox 2	0.017
Irx5	Iroquois related homeobox 5 (Drosophila)	0.017
Ntf3	neurotrophin 3	0.017
Cdx2	caudal type homeobox 2	0.016
Rim4	recombination induced mutation 4	0.016
Gata6	GATA binding protein 6	0.016
Etv4	ets variant gene 4 (E1A enhancer binding protein, E1AF)	0.016
Hdac1	histone deacetylase 1	0.015
Zic4	zinc finger protein of the cerebellum 4	0.015
Ldb1	LIM domain binding 1	0.015
Hes5	hairy and enhancer of split 5 (Drosophila)	0.015
Mdfi	MyoD family inhibitor	0.015
Six1	sine oculis-related homeobox 1 homolog (Drosophila)	0.015
St8sia3	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 3	0.015
Gpr50	G-protein-coupled receptor 50	0.015
Mycn	v-myc myelocytomatosis viral related oncogene, neuroblastoma derived (avian)	0.015
Bbs1	Bardet-Biedl syndrome 1 (human)	0.015
Foxf2	forkhead box F2	0.014
Egfr	epidermal growth factor receptor	0.014
Foxd4	forkhead box D4	0.014
Bmpr1b	bone morphogenetic protein receptor, type 1B	0.014
Myf5	myogenic factor 5	0.014
Hoxa4	homeobox A4	0.014
Nog	noggin	0.014
Fshr	follicle stimulating hormone receptor	0.014
Hmx1	H6 homeobox 1	0.014
Dkk1	dickkopf homolog 1 (Xenopus laevis)	0.014
Sox4	SRY-box containing gene 4	0.014
Foxd2	forkhead box D2	0.014
Zfpm2	zinc finger protein, multitype 2	0.014
Lmna	lamin A	0.014
Ebf3	early B-cell factor 3	0.014
Pou3f2	POU domain, class 3, transcription factor 2	0.014
Alx3	aristaless-like homeobox 3	0.013
En2	engrailed 2	0.013
Twist2	twist homolog 2 (Drosophila)	0.013	Mouse
Barhl1	BarH-like 1 (Drosophila)	0.013
Foxd1	forkhead box D1	0.013
Chrna3	cholinergic receptor, nicotinic, alpha polypeptide 3	0.013
Lhx5	LIM homeobox protein 5	0.013	Mouse
Kcnq2	potassium voltage-gated channel, subfamily Q, member 2	0.013
Lmo1	LIM domain only 1	0.013
Trp53	transformation related protein 53	0.013
Tcf3	transcription factor 3	0.013
Hoxa13	homeobox A13	0.013
Mdm4	transformed mouse 3T3 cell double minute 4	0.013
Efna2	ephrin A2	0.012
Tbx15	T-box 15	0.012
Matn1	matrilin 1, cartilage matrix protein	0.012
Zic3	zinc finger protein of the cerebellum 3	0.012
Sim1	single-minded homolog 1 (Drosophila)	0.012
Hoxb1	homeobox B1	0.012
Cbx2	chromobox homolog 2 (Drosophila Pc class)	0.012
Cbln1	cerebellin 1 precursor protein	0.012
Pde6b	phosphodiesterase 6B, cGMP, rod receptor, beta polypeptide	0.012
Nkx6-1	NK6 homeobox 1	0.012
Dpf1	D4, zinc and double PHD fingers family 1	0.012
Fgf18	fibroblast growth factor 18	0.012
Plxna2	plexin A2	0.012
Nhlh2	nescient helix loop helix 2	0.012	Mouse
Ina	internexin neuronal intermediate filament protein, alpha	0.012
Gucy2e	guanylate cyclase 2e	0.012
Gnrh1	gonadotropin releasing hormone 1	0.012
Ttc30b	tetratricopeptide repeat domain 30B	0.012
Slc12a5	solute carrier family 12, member 5	0.012
Rdh10	retinol dehydrogenase 10 (all-trans)	0.012
Tbr1	T-box brain gene 1	0.012
Nkx2-3	NK2 transcription factor related, locus 3 (Drosophila)	0.012
Glra1	glycine receptor, alpha 1 subunit	0.012
Aldh1a2	aldehyde dehydrogenase family 1, subfamily A2	0.012
Fzd4	frizzled homolog 4 (Drosophila)	0.012
Odz2	odd Oz/ten-m homolog 2 (Drosophila)	0.012
Rax	retina and anterior neural fold homeobox	0.012
Sox7	SRY-box containing gene 7	0.012
Tecta	tectorin alpha	0.011
Col9a1	collagen, type IX, alpha 1	0.011
Bnc1	basonuclin 1	0.011
Kcnk3	potassium channel, subfamily K, member 3	0.011
Dlx1	distal-less homeobox 1	0.011
Ptk7	PTK7 protein tyrosine kinase 7	0.011
Isl2	insulin related protein 2 (islet 2)	0.011	Mouse
Tgfbr2	transforming growth factor, beta receptor II	0.011
Hoxd1	homeobox D1	0.011
Tcf4	transcription factor 4	0.011
Hoxb13	homeobox B13	0.011
Nkx2-9	NK2 transcription factor related, locus 9 (Drosophila)	0.011
Tbx5	T-box 5	0.011
Bbs4	Bardet-Biedl syndrome 4 (human)	0.011
Igf2bp1	insulin-like growth factor 2 mRNA binding protein 1	0.011
Flt1	FMS-like tyrosine kinase 1	0.011
Fzd6	frizzled homolog 6 (Drosophila)	0.011
Nkx1-2	NK1 transcription factor related, locus 2 (Drosophila)	0.011
Notch2	Notch gene homolog 2 (Drosophila)	0.011
Dmbx1	diencephalon/mesencephalon homeobox 1	0.011
Myt1	myelin transcription factor 1	0.011
Aanat	arylalkylamine N-acetyltransferase	0.011
Sox1	SRY-box containing gene 1	0.010
Pou3f4	POU domain, class 3, transcription factor 4	0.010
Hoxc5	homeobox C5	0.010
Trpm1	transient receptor potential cation channel, subfamily M, member 1	0.010
Nrl	neural retina leucine zipper gene	0.010
Onecut2	one cut domain, family member 2	0.010
Evx2	even skipped homeotic gene 2 homolog	0.010
Sox21	SRY-box containing gene 21	0.010
Mab21l1	mab-21-like 1 (C. elegans)	0.010
Ush1g	Usher syndrome 1G homolog (human)	0.010
Nptx1	neuronal pentraxin 1	0.010
Vsx2	visual system homeobox 2	0.010
Eya1	eyes absent 1 homolog (Drosophila)	0.010
Pou3f1	POU domain, class 3, transcription factor 1	0.010
Lgr5	leucine rich repeat containing G protein coupled receptor 5	0.010
Tbx2	T-box 2	0.010
Hmx3	H6 homeobox 3	0.010
Col13a1	collagen, type XIII, alpha 1	0.010
Magel2	melanoma antigen, family L, 2	0.010
Otp	orthopedia homolog (Drosophila)	0.010
Alx4	aristaless-like homeobox 4	0.010
Clvs1	clavesin 1	0.010