Gene	Pubmed ID	mRNA  length (b.p.)	Probe Coordinates	Probe Length (b.p.)	Forward Primer	Reverse Primer	Probe Location	Cloning Sites	Parent Vector	RNA Polymerase and cut site for antisense probe 	Comments
Atoh1	NM_007500	2118	12-786	775	n/a	n/a	5'UTR to part coding	n/a	n/a	T7/KpnI	"Gowan, K., Helms, A.W., Hunsaker, T.L., Collisson, T., Ebert, P.J., Odom, R., and Johnson, J.E. (2001). Crossinhibitory activities of Ngn1 and Math1 allow specification of distinct dorsal interneurons. Neuron 31, 219-232."
Gmpr	NM_025508	1554	189-1226	1038	ATACTCGAGttaaccaaacaccgtgttgtgc	ATAGGATCCatgccccgcatagacgcggacc	Full coding	XhoI/BamHI	pGEM-7Zf	T7/BamHI	1 point mutation
Grem2	NM_011825	3745	2235-2966	732	ATAGAATTCgctcacatacatacattgtgggtccc	ATAAAGCTTgtgcaattgttctagggaggcc	3'UTR	EcoRI/HindIII	pGEM-7Zf	T7/HindIII	11 point mutations
Gsg1l	NM_001101488	3924	2726-3730	1005	ATAGAATTCgacctcctggggcccatgacc	ATAGGATCCgggtgtggtacctgctctgg	3'UTR	EcoRI/BamHI	pGEM-7Zf	T7/BamHI	
Klf7	NM_033563	1344	389-1294	906	n/a	n/a	Full coding	n/a	n/a	T3/EcoRI	Gift from Lei Lei
Ntrk3-rat	BC078844	1891	1-1885	1885	n/a	n/a	"Full coding, extracellular domain of truncated form"	n/a	n/a	T7/BamHI	Gift from Lei Lei 
Rab15	NM_134050	3126	261-864	604	CCGGGATCCGCCCGggactccactcagaaccctcagc	GTGGCGGCCGCTCTAGCCggttggcaagacatgcctgctgtgc	Part coding to 3'UTR	BamHI/NotI	pPCR-Script Amp SK+	T7/NotI	1 point mutation
Rassf4	NM_178045	6325	3658-4406	749	CCGGGATCCgctgagaaacagcctagcaaag	GTGGCGGCCGCcaaagtctttcacccagaatac	3'UTR	BamHI/NotI	pPCR-Script Amp SK+	T7/NotI	
Selm.1	NM_053267	888	244-871	628	ATAGAATTCgaaggaagaagatttagtagagctgg	ATAGGATCCatgagcatcctactgtcgccg	Full coding to 3'UTR	EcoRI/BamHI	pGEM-7Zf	T7/BamHI	ISH probe used for P0 cerebella and E6.5 hair cells and Merkel cells
Selm.2	NM_053267	888	1-871	871	ATAGAATTCgaaggaagaagatttagtagagctgg	ATAGGATCCggagattgtgagaactgggaacatg	entire cDNA seq	EcoRI/BamHI	pGEM-7Zf	T7/BamHI	
Selm.3	NM_053267	888	166-372	207	ATAGAATTCctccacccgccccctggcc	ATAGGATCCggggccagcttgcgggcc	exon2	EcoRI/BamHI	pGEM-7Zf	T7/BamHI	
Selm.4	NM_053267	888	523-871	349	ATAGAATTCgaaggaagaagatttagtagagctgg	ATAGGATCCcgaatcccactcagccaaatg	exon5	EcoRI/BamHI	pGEM-7Zf	T7/BamHI	
Smad7.1	NM_001042660	4441	2469-3037	569	CCGGGATCCGCCCGccagaacagaacaaaacaaaaccaacaatg	GTGGCGGCCGCTCTAGCCggaatggcttttgcctcggacagc	Part coding to 3'UTR	BamHI/NotI	pPCR-Script Amp SK+	T7/NotI	"Stratagene, 2 point mutations"
Smad7.2	NM_001042660	4441	2017-2676	660	CCGGGATCCgggaacactttgtgcaccaacag	GTGGCGGCCGCggagcggcagctggagctgctgc	Part coding	BamHI/NotI	pPCR-Script Amp SK+	T7/NotI	Stratagene; ISH probe used for P0 cerebella
Tle4	NM_011600	1283	2532-3032	501	CCGGGATCCGCCCGggctatgggaagggattaaactcc	GTGGCGGCCGCTCTAGCCtgcagcaacatgacttcacctctcag	Part coding to 3'UTR	BamHI/NotI	pPCR-Script Amp SK+	T7/NotI	1 point mutation