Table 1.

Profile of Genes Expressed in Limb Muscle

	NCBI Gene ID	Symbol	Alternative	Domain	Expression
1	218490	Btf3	1700054E11Rik		2
2	59035	Carm1	Prmt4		1
3	107951	Cdk9	PITALRE		1
4	56449	Csda	MSY4		2
5	269713	Clip2	Cyln2		1
6	13194	Ddb1	AA408517		1
7	226049	Dmrt2	Terra	DM	1
8	15205	Hes1	Hry	bHLH	1
9	55927	Hes6	AI326893	bHLH	2
10	15384	Hnrnpab	Hnrpab		2
11	15516	Hsp90ab1	Hspcb		2
12	15902	Id2	Idb2	bHLH	2
13	15903	Id3	Idb3	bHLH	2
14	16468	Jarid2	Jmj	ARID	2
15	50868	Keap1	INRF2		1
16	16814	Lbx1	Lbx1h	Homeobox	2
17	17220	Mcm7	Mcmd7		2
18	17258	Mef2a	A430079H05Rik	MADS-box	1
19	17260	Mef2c	5430401D19Rik	MADS-box	2
20	17261	Mef2d	MGC31718	MADS-box	1
21	17283	Men1	AW045611		1
22	17286	Meox2	Mox2	Homeobox	2
23	18432	Mybbp1a	p67MBP		2
24	17869	Myc	c-myc	bHLH	2
25	17877	Myf5	Myf-5	bHLH	2
26	17927	Myod1	MyoD	bHLH	2
27	17928	Myog	Myogenin	bHLH	2
28	110109	Nop2	Nol1		2
29	23967	Osr1	Odd1	ZF C2H2	2
30	18505	Pax3	splotch	Homeobox	2
31	18742	Pitx3	Ptx3	Homeobox	2
32	19401	Rara	Nr1b1	NR	2
33	56190	Rbm38	Rnpc1		1
34	67097	Rps10	2210402A09Rik		1
35	20471	Six1	BB138287	Homeobox	2
36	12180	Smyd1	Bop	ZF MYND	2
37	64406	Sp5		ZF C2H2	2
38	20901	Strap	AW557906		1
39	21413	Tcf4	E2-2	bHLH	2
40	21416	Tcf7l2	Tcf-4	HMG	2
41	21681	Thoc4	REF1		2
42	22608	Ybx1	YB-1		2
43	30928	Zfp238	RP58	ZF C2H2	2

Total profiles of genes expressed in the E11.5 muscle-forming region. Forty-three genes were identified as muscle transcription factors by EMBRYS database. NCBI gene ID (http://www.ncbi.nlm.nih.gov/), gene symbol, alternative gene name, representative predicted DNA binding domain (domain), and intensity of expression in limb muscle (expression) based on EMBRYS analysis are shown in each column, respectively. Although migration of myogenic cells from trunk to forelimb starts around E9.5, we cannot identify the signal as being derived from muscle cells at E9.5 and E10.5 limb middle mesenchyme. However, we did classify muscle expression genes based on expression patterns of MyoD and Myog at E11.5 (cf Figure 2A; Figure S2; Table S4). We screened, collected, and annotated “muscle genes” using this pattern in E11.5 limb bud. Thus, these 43 genes are identified. In the Expression column, “2” indicates an intense signal and “1” indicates moderate expression in limb muscle (cf Figure 1C). Abbreviations: DM, dsx and mab-3; bHLH, basic helix-loop-helix; ARID, AT-rich interaction domain; MADS, MCM1, Agamous, Deficiens, and SRF; ZF, zinc finger; NR, nuclear receptors; HMG, high-mobility group. Blank indicates genes do not encode TFs.