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["Table S4"]
["Interaction","Stage"]
[null,null,"nlrr1","ngl-1"]
["Nlrr1-Ngl-1 (349-565)"]
[]
[]
[]
[null,null,"unc5b","flrt1b"]
["Unc5b-Flrt1b (364-318)","24-36h","spinal cord roof plate","spinal cord"]
[null,"24-48h","dorsal retina","tegmentum"]
[]
["Unc5b-Flrt1a (364-372)","36-48h","dorsal otic vesicle","otic vesicle"]
[null,"48h","dorsal retina","retinal ganglion cell layer"]
[]
["Islr2-Slit-like2 (373-336)"]
[]
[]
["Unc5b-Flrt3 (364-376)"]
[]
[]
["Unc5b-Islr2 (364-373)"]
[]
[]
["Lrrtm1-Fgfrl1b (378-556)"]
[]
[]
["Lrrc62-IgSFm21 (398-544)"]
[]
[]
["Lrrtm1-Boc (378-524)"]
[]
[]
["Lrrtm1-Fgfrl1a (378-493)"]
[]
[]
["Sim2sh1-Robo3 (369-523)"]
[]
[]
["Lrrtm4-Boc (341-524)"]
[]
[]
["Lingo-1a-Lingo-1b (342-317)"]
[]
[]
["Nlrr1-Ngl-2 (349-365)"]
[]
[]
["Lrrc24-Robo2 (337-101)"]
[]
[]
["Lrrtm1-Ngrh2a (378-325)"]
[]
[]
["Lrrtm3a-Lrrc24 (341-337)"]
[]
[]
["Flrt3-Mag (376-339)"]
[]
[]
["Lrrc62-Boc (398-524)"]
[]
[]
["Flrt3-Boc (376-524)"]
[]
[]
["Lrrtm1-Fgfr4 (378-527)"]
[]
[]
["Robo2-Lrrtm1 (101-378)"]
[]
[]
["Lrrtm1-Mag (378-339)"]
[]
[]
["Lrrtm intercations"]

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[]
[]
[]
["Gene","Stage","Expression"]
["lrrn1","5-9 somites","Ventral spinal cord, sensory neurons, trigeminal ganglion, somites, tail bud"]
[null,"14-19 somites","Retina, brain, stronger expression in rhombomere 4, spinal cord, posterior somites"]
[null,"Prim-5","Brain, stronger expression in rhombomere 4, spinal cord, posterior somites"]
[null,"Long-pec","CNS, retina, epiphysis,  dorsal hindbrain, spinal cord"]
[null,"Day 4","CNS"]
["lrrc4c","5-9 somites","Anterior neural plate"]
[null,"14-19 somites","Whole organism"]
[null,"Prim-5","Otic vesicle, neurons in hindbrain and spinal cord"]
[null,"Long-pec","CNS, lens"]
[null,"Day 4","Retinal ganglion cells, retinal inner nuclear layer"]
["lrrc4a","Gastrula","Not expressed"]
[null,"5-9 somites","Stripe in neural plate, presumptive hindbrain"]
[null,"14-19 somites","CNS"]
[null,"Prim-5","Telencephalon ventricular zone, epiphysis, tegmentum, neurons in hindbrain and spinal cord, rhombomeres 4 and 6"]
[null,"Prim-25","Telencephalon ventricular zone, epiphysis, tegmentum, neurons in hindbrain and spinal cord, rhombomeres 4 and 6"]
[null,"Long-pec","CNS, retinal ganglion cell layer"]
[null,"Day 5","CNS, retinal ganglion, retinal inner cell layer"]
["lingo1a","Gastrula","Not expressed"]
[null,"14-19 somites","Dorsotemporal retina, cells in anterior cranial ganglia"]
[null,"Prim-5","Lens, primary neurons, telencephalon, diencephalon, tegmentum, hindbrain, spinal cord, trigeminal ganglia"]
[null,"Long-pec","Brain marginal zone, cranial ganglia"]
[null,"Day 5","Brain marginal zone, cranial ganglia, retinal ganglion and inner cell layer"]
["lingo1b","Gastrula","Anterior neural plate"]
[null,"5-9 somites","Telencephalon, ventral diencephalon"]
[null,"14-19 somites","Forebrain ventricular zone"]
[null,"Prim-5","Telencephalon, tegmentum, part of ventral diencephalon, hindbrain and spinal cord neurons marginal zone"]
[null,"Prim-25","CNS marginal zone"]
[null,"Long-pec","CNS marginal zone, lateral line ganglia, retinal ganglion layer"]
[null,"Day 5","CNS non ventricular, retinal ganglion layer"]
["robo3","Gastrula","EVL"]
[null,"1-4 somites","Periderm"]
[null,"Prim-5","Periderm, CNS marginal zone from hindbrain to spinal cord, olfactory vesicle, proctodeum"]
[null,"Prim-25","Periderm, CNS marginal zone from hindbrain to spinal cord, olfactory vesicle, proctodeum, median fin fold"]
[null,"Long-pec","Brain marginal zone, pectoral fin epidermis, lateral line neuromasts, nose, branchial arches, habenula, median fin fold"]
["elfn1","Gastrula","Not expressed"]
[null,"Prim-5","Anterior MHB, dorsal telencephalon, part of diencephalon"]
[null,"Prim-25","Anterior MHB, dorsal telencephalon"]
[null,"Long-pec","Brain non ventricular, spot in dorsal telencephalon at the midline"]
[null,"Day 5","Brain non ventricular, spot in dorsal telencephalon at the midline, habenula nucleus - stronger on the left"]
["vasn","5-9 somites","Presumptive floorplate"]
[null,"14-19 somites","Medial floor plate"]
[null,"Prim-5","Floor plate"]
[null,"Prim-25","Floor plate, prospective pharyngeal arches"]
[null,"Long-pec","Floor plate, pharyngeal arches"]
["islr2","5-9 somites","Not expressed"]
[null,"14-19 somites","Primary neurons in hindbrain and spinal cord"]
[null,"Prim-5","Neurons in fore-, mid-, and hindbrain, spinal cord"]
[null,"Prim-25","Neurons in fore-, mid-, and hindbrain"]
[null,"Long-pec","Neurons in fore-, mid-, and hindbrain, spinal cord"]
[null,"Day 4","CNS, retinal ganglion cell layer"]
["unc5b","Gastrula","Not expressed"]
[null,"14-19 somites","Diencephalon, dorsal epidermis, ventral cephalic mesendoderm"]
[null,"Prim-5","Dorsal CNS, spinal cord roof plate, dorsal epidermis, median fin fold, tegmentum, dorsal otic vesicle, dorsal retina"]
[null,"Long-pec","Median fin fold, AER pectoral fin, dorsal retina, lens, dorsal otic vesicle, dorsal hindbrain, dorsal midline midbrain, tegmentum, nucleus in diencephalon"]
["flrt1b","Gastrula","Not expressed"]
[null,"14-19 somites","Ventral rhombomeres 1 - 3, not in rhombomere 4, ventral and dorsal part of rhombomeres 5 and 6, not in rhombomere 7, anterior ventral spinal cord"]
[null,"Prim-5","Olfactory vesicle, olfactory bulb, MHB, lateral posterior tegmentum, hindbrain ventricular zone, spinal cord"]
[null,"Prim-25","Olfactory vesicle, olfactory bulb, MHB, lateral posterior tegmentum, hindbrain ventricular zone, spinal cord"]
["flrt1a","Gastrula","Not expressed"]
[null,"Prim-5","Primary neurons, cranial ganglia"]
[null,"Prim-25","CNS marginal zone, choroid fissure, otic vesicle, cranial ganglia"]
[null,"Long-pec","CNS marginal zone, choroid fissure, otic vesicle, cranial ganglia, nose, retinal ganglion cell layer"]
["flrt3","14-19 somites","Somites, eye, stripe in the midbrain close to MHB, anterior midbrain"]
[null,"Prim-5","Ventral retina, stripe in the midbrain close to the MHB, ear, posterior somites"]
[null,"Long-pec","Pectoral fin, retina, CNS"]
["boc","Gastrula","Whole organism"]
[null,"1-4 somites","Hindbrain neural plate, neural plate "]
[null,"14-19 somites","Hindbrain, MHB, neural rod"]
[null,"Prim-5","Forebrain, hindbrain, neural tube, optic tectum, spinal cord, ventricular zone"]
[null,"Prim-25","Forebrain, hindbrain, hypothalamus, optic tectum, spinal cord, ventricular zone"]
[null,"Long-pec","Hindbrain, optic tectum, pectoral fin, pharyngeal arch"]
["elfn2","Gastrula","Not expressed"]
[null,"Prim-5","Primary neurons in spinal cord, telencephalon, ventral diencephalon, hindbrain"]
[null,"Prim-25","Brain marginal zone, spinal cord"]
[null,"Day 5","Brain marginal zone"]
["igsf21","Prim-25","Hypothalamus, ventral retina, cells in dorsal telencephalon"]
[null,"Day 5","Retinal inner nuclear layer"]
["mag","Prim-25","Telencephalon"]
[null,"Long-pec","Telencephalon, oligodendrocytes in hindbrain and spinal cord, nuclei in telencephalon"]
[null,"Day 5","Dorsal telencephalon, dorsal midline in midbrain, oligodendrocytes in brain, Schwann cells, complex pattern at MHB"]
["lrrtm1","Gastrula","Not expressed"]
[null,"5-9 somites","Forebrain, part of hindbrain"]
[null,"14-19 somites","Forebrain, part of hindbrain"]
[null,"Prim-5","Telencephalon, ventral diencephalon, anterior ventral tegmentum, ventral retina, lateral hindbrain"]
[null,"Prim-25","Telencephalon, ventral diencephalon, lateral tegmentum, lateral hindbrain, MHB, dorsal diencephalon, ventral spinal cord"]
[null,"Long-pec","Brain non ventricular, choroid fissure"]
[null,"Day 5","Brain, retina"]
["lrrtm4l2","Gastrula","Not expressed"]
[null,"14-19 somites","Chordo-neural hinge"]
[null,"Prim-5","Discrete neurons in diencephalon, telencephalon, epiphysis"]
[null,"Long-pec","Discrete neurons in diencephalon, telencephalon, epiphysis, lateral MHB and lateral hindbrain"]
[null,"Day 5","Discrete neurons in diencephalon, telencephalon, epiphysis, lateral MHB and lateral hindbrain, retina"]
["lrrtm4l1","Gastrula","Not expressed"]
[null,"Prim-5","CNS"]
[null,"Prim-25","CNS, nuclei in telencephalon, diencephalon, hindbrain"]
["lrrtm2","Gastrula","Not expressed"]
[null,"5-9 somites","Hindbrain"]
[null,"14-19 somites","Ventral diencephalon, ventral hindbrain, anterior spinal cord"]
[null,"Prim-5","Neurons in telencephalon, dorsal diencephalon, tegmentum, hindbrain, anterior half of spinal cord "]
[null,"Long-pec","CNS"]
[null,"Day 5","CNS, retinal ganglion cell layer, retinal inner nuclear layer"]
["rtn4rl1","Gastrula","Not expressed"]
[null,"4-9 somites","Not restricted"]
[null,"14-19 somites","Not restricted"]
[null,"Prim-5","Basal expression, cranial ganglia, olfactory bulb, spinal cord neurons"]
[null,"Long-pec","Head"]
[null,"Day 5","Head, left habenula nucleus"]
["fgfr4","14-19 somites","Somites, neural tube"]
[null,"Prim-15","Eye, head mesenchyme, lens, retina"]
["fgfrl1a","1-4 somites","Notochord, optic primordium, optic vesicle, segmental plate, somite, ventral mesoderm"]
[null,"14-19 somites","Eye, MHB, notochord, somite, telencephalon"]
[null,"20-25 somites","Diencephalon, MHB, pharyngeal arch 3-7 skeleton, somite, telencephalon"]
[null,"Prim-25","Diencephalon, hypaxial myotome region, liver, MHB, pectoral fin musculature, pharyngeal arch 3-7 skeleton, telencephalon"]
[null,"Long-pec","Diencephalon, MHB, otic vesicle, pectoral fin musculature, pharyngeal arch 3-7 skeleton, telencephalon"]
["fgfrl1b","Gastrula","Not expressed"]
[null,"4-9 somites","Endoderm, ventral mesoderm"]
[null,"14-19 somites","Endoderm, axial vasculature, caudal vein, hypochord"]
[null,"Prim-5","Lens, pharyngeal endoderm, anterior half of intestine, axial vasculature"]
[null,"Long-pec","Splanchnocranium, pectoral fin, lens, pharynx"]
["robo2","14-19 somites","Brain, olfactory epithelium, olfactory placode"]
[null,"Prim-5","Forebrain"]
[null,"Lon-pec","Retinal ganglion cell"]
["lrrc24","Gastrula","Not expressed"]
[null,"Prim-5","Brain nonventricular"]
[null,"Long-pec","Brain nonventricular, retinal inner nuclear layer"]
["Abbreviations: CNS = Central nervous system; MHB = Mid-hindbrain boundary; EVL = Enveloping cell layer; AER = Apical ectodermal ridge."]

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["Zygote (0 - 0.75 h)","1-cell","0.00 h","Cytoplasm streams toward animal pole to form blastodisc"]
["Cleavage","2-cell ","0.75 h","Partial cleavage"]
["(0.75 - 2.25 h)","4-cell","1.00 h","2 X 2 array of blastomeres"]
[null,"8-cell","1.25 h","2 X 4 array of blastomeres"]
[null,"16-cell","1.50 h","4 X 4 array of blastomeres"]
[null,"32-cell","1.75 h","4 X 8 array of blastomeres"]
[null,"64-cell","2.00 h","3 regular tiers of blastomeres"]
["Blastula","128-cell","2.25 h","5 blastomere tiers; cleavage planes irregular"]
["(2.25 - 5.25 h)","256-cell","2.50 h","7 blastomere tiers"]
[null,"512-cell","2.75 h","9 blastomere tiers; YSL forms"]
[null,"1k-cell","3.00 h","11 blastomere tiers; single row of YSL nuclei; asynchronous cell cycle"]
[null,"High","3.33 h","> 11 blastomere tiers; blastodisc flattening begins; YSL nuclei in two rows"]
[null,"Oblong","3.66 h","Blastodisc flattening; multiple rows of YSL nuclei"]
[null,"Sphere","4.00 h","Spherical shape; flat border between blastodisc and yolk"]
[null,"Dome","4.33 h","Yolk cell bulging toward animal pole as epiboly begins"]
[null,"30%-epiboly","4.66 h","Blastoderm an inverted cup of uniform thickness"]
["Gastrula","50%-epiboly","5.25 h","Blastoderm remains of uniform thickness"]
["(5.25 - 10.33 h)","Germ-ring","5.66 h","Germ ring visible from animal pole; 50%-epiboly"]
[null,"Shield","6.00 h","Embryonic shield visible from animal pole; 50%-epiboly"]
[null,"75%-epiboly","8.00 h","Dorsal side distinctly thicker; epiblast, hypoblast, evacuation zone visible"]
[null,"90%-epiboly","9.00 h","Axis and neural plate; brain and notochord rudiments"]
[null,"Bud","10.00 h","Tail bud prominent; early polster; 100%-epiboly"]
["Segmentation","1-4 somites","10.33 h","First somite furrow"]
["(10.33 - 24 h)","5-9 somites","11.66 h","Polster prominent; optic vesicle, Kupffer's vesicle, neural keel"]
[null,"10-13 somites","14 h","Pronephros forms"]
[null,"14-19 somites","16 h","EL (embryo length) = 0.9 mm; otic placode, brain neuromeres"]
[null,"20-25 somites","19 h","EL = 1.4 mm; lens, otic vesicle, hindbrain neuromeres"]
[null,"26+ somites","22 h","EL = 1.6 mm; blood islands, otoliths, midbrain-hindbrain boundary"]
["Pharyngula","Prim-5","24 h","EL = 1.9 mm; early pigmentation, heartbeat"]
["(24 - 48 h)","Prim-15","30 h","EL = 2.5 mm; early touch reflex, retina pigmented"]
[null,"Prim-25","36 h","EL = 2.7 mm; early motility, tail pigmentation"]
[null,"High-pec","42 h","EL = 2.9 mm; rudiments of pectoral fins"]
["Hatching","Long-pec","48 h","EL = 3.1 mm; elongated pectoral fin buds"]
["(48 - 72 h)","Pec-fin","60 h","EL = 3.3 mm; pectoral fin blades"]
["Larval","Protruding-mouth","72 h","3.5 mm total body length"]
[null,"Day 4","96 h","3.7 mm total body length"]
[null,"Day 5","120 h","3.9 mm total body length; 6 teeth"]
[null,"Day 6","144 h","4.2 mm total body length"]
[null,"Days 7-13","168 h","4.5 mm total body length; 8 teeth"]
[null,"Days 14-20","14 d","6.2 mm total body length; 10 teeth"]
[null,"Days 21-29","21 d","7.8 mm total body length"]
["Juvenile","Days 30-44","30 d","10 mm total body length; adult fins/pigment"]
[null,"Days 45-89","45 d","14 mm total body length; 12 teeth"]
["Adult (90 d - 2 y)",null,"90 d","Breeding adult"]