Table 1.

Amphioxus GFP genes.

Gene	JGI Gene Model	Baumann et al. 2008	Scaffold	Position	Correction of Gene Prediction	Gene Product	EST Count
Clade a
GFPa1	fgenesh2_pg.scaffold_1000062	Lan1	1	1116500–1118933	None	EST/PCR	204
GFPa2	fgenesh2_pg.scaffold_264000004	Lan3	264	58192–60413	Trimmed N-term	EST	27
GFPa3	fgenesh2_pg.scaffold_549000016	Lan9	549	352398–358639	None	No
GFPa4	fgenesh2_pg.scaffold_549000017		549	364853–368343	Trimmed C-term	No
GFPa5	fgenesh2_pg.scaffold_1000068	Lan12	1	1208185–1211151	Trimmed C-term	No
Clade b
GFPb1	fgenesh2_pg.scaffold_408000038	Lan13	408	704470–709647	Trimmed N-term	No
GFPb1a	fgenesh2_pg.scaffold_58000035		58	532019–534945	Trimmed N-term (7AA + ATG)	No
GFPb2	fgenesh2_pg. scaffold_408000037		408	691033–694888	Extended N, C term	No
GFPb2a	fgenesh2_pg. scaffold_58000034	Lan19	58	518572–521504	Trimmed start (48AA)	No
GFPb3	estExt_fgenesh2_pg.C_4080036	Lan5-Nterm	408	656826–660682	Extended N-term, trimmed C-term.	EST	1
GFPb3a	fgenesh2_pg.scaffold_58000032		58	485880–488855	Trimmmed N-term, added ATG	No
GFPb4	estExt_fgenesh2_pg.C_4080036	Lan5-Cterm	408	674499–680280	Trimmed N-term.	EST	1
GFPb4a	fgenesh2_pg.scaffold_58000033		58	507562–508283	Two-exon fragment. Trimmed and extended both ends	No
Clade c
GFPc1	fgenesh2_pg.scaffold_722000001	Lan11	722	186–3347	Trimmed N-term, added ATG	No
GFPc1a	fgenesh2_pg.scaffold_58000036		58	555111–557942	None	PCR
Clade d
GFPd1	fgenesh2_pg.scaffold_149000048		150	209871–211956	Trimmed N-term	EST/PCR	13
GFPd1a	fgenesh2_pg.scaffold_150000025		149	908671–910787	None	No
GFPd2	fgenesh2_pg.scaffold_771000005		771	43072–45512	None	EST/PCR	5
GFPd2a	estExt_fgenesh2_pg.C_2370020	Lan7	237	340592–343047	Trimmed N-term	No
Clade e
GFPe1	fgenesh2_pg.scaffold_1000063		1	1141692–1143777	Filled internal deletion	EST/PCR	194
GFPe2	fgenesh2_pg.scaffold_1000066	Lan4	1	1168253–1170596	None	EST	26
GFPe2a	fgenesh2_pg.scaffold_13000140		13	3112741–3113363	Extended N-term	No
GFPe3	fgenesh2_pg.scaffold_1000064	Lan2	1	1150911–1152721	None	EST	125
GFPe3a	fgenesh2_pg.scaffold_264000003		264	31164–32864	Extended C-term	No
Clade f
GFPf1	fgenesh2_pg.scaffold_1000065	Lan6	1	1159351–1162889	None	EST	3
GFPf1a	fgenesh2_pg.scaffold_264000002		264	14129–18055	Trimmed internal insert	EST (truncated)

List of amphioxus GFP gene sequences with genomic mapping, errors in original gene predictions, evidence of gene product, and EST count. Secondary alleles have an "a" suffix. EST count refers to the number of GFP sequences in library of 334,502 B. floridae ESTs.