TABLE 3.

Identification of putative conserved syntenies between the catfish and zebrafish genomes

Locus	GID/contig	ENSEMBL ID	Chromosome	Chromosome location (bp)	E-value	Linkage group	Map location (cM)
AUEST0368	CF262908	ENSDART00000024945	1	37,727,657	0.74	29	44.6
AUSNP000047	Ctg_3078	ENSDART00000054230	1	22,493,244	1.00	29	131.2
AUEST0074	BM028055	ENSDART00000081134	1	4,593,682	0.84	12	100.4
AUEST0270	CF262276	ENSDART00000103588	1	5,640,711	0.27	12	82.6
AUSNP000093	Ctg_3139	ENSDART00000100195	1	55,725,417	1.00	12	7.5
AUEST0137	BM495657	ENSDART00000101881	1	31,938,503	0.23	9	3.7
AUEST0106	BM495226	ENSDART00000021158	2	12,139,259	0.29	6	79.2
AUEST0168	BM438559	ENSDART00000055792	2	2,187,626	0.15	6	57.3
AUEST0290	CB937768	ENSDART00000048277	2	35,593,551	0.16	16	22.2
AUEST0154	BE469707	ENSDART00000012487	2	17,181,829	0.25	13	11.3
AUEST0023L	BM496054	ENSDART00000036997	2	40,658,639	0.42	19	13.8
AUSNP000009	Ctg_0027	ENSDART00000087086	2	25,356,938	0.18	5	0.5
AUEST0002	BM438455	ENSDART00000016407	3	35,368,255	0.25	11	27.9
AUEST0671	CK413397	ENSDART00000055360	3	28,793,198	0.68	23	37.7
AUSNP000026	Ctg_1273	ENSDART00000074561	3	41,753,186	0.44	13	54.3
AUEST0838	BE469511	ENSDART00000080075	3	13,504,775	1.00	26	7.4
AUSNP000072	Ctg_4221	ENSDART00000004305	3	13,516,452	1.00	26	21.9
AUSNP000042	Ctg_2754	ENSDART00000030890	3	23,436,798	1.00	25	14.1
AUEST0070	AF267989	ENSDART00000055675	3	19,486,003	0.71	25	33.5
AUEST0151	BM027834	ENSDART00000046995	3	1,374,688	0.77	25	35.8
AUEST0824	BE468808	ENSDART00000039572	4	16,948,230	0.20	12	3.2
AUEST0149	BM497130	ENSDART00000066929	4	21,411,838	0.28	22	31.6
AUEST0704	CK413527	ENSDART00000000020	4	15,491,685	0.32	22	0.0
AUEST0679	CK413500	ENSDART00000051554	5	14,064,654	0.48	16	73.1
AUSNP000036	Ctg_2405	ENSDART00000024676	5	62,066,731	1.00	16	25.4
AUEST0286L	CF262064	ENSDART00000074117	5	70,268,448	0.26	10	27.1
AUEST0516	CK412782	ENSDART00000051236	5	30,026,995	0.30	10	10.9
AUEST0526	CK412855	ENSDART00000038929	5	68,419,340	0.31	10	38.0
AUEST0537	CK412946	ENSDART00000051135	5	38,197,794	0.44	10	0.0
AUSNP000041	Ctg_2749	ENSDART00000089992	5	12,496,309	0.19	10	8.0
AUSNP000081	Ctg_5550	ENSDART00000080919	5	12,171,859	0.61	10	9.4
AUSNP000082	Ctg_0743	ENSDART00000023554	5	51,276,820	1.00	10	12.2
AUSNP000087	Ctg_1741	ENSDART00000050949	5	51,428,185	1.00	10	10.3
AUEST0767	BM497034	ENSDART00000041882	6	26,178,677	0.56	28	0.0
AUSNP000048	Ctg_3079	ENSDART00000064904	6	26,868,281	1.00	28	2.8
AUEST0010	BE469169	ENSDART00000019845	6	27,616,006	0.67	15	32.4
AUEST0078	BM495047	ENSDART00000083670	6	37,763,322	0.11	14	70.6
AUSNP000023	Ctg_1244	ENSDART00000073780	6	3,537,041	0.36	25	4.9
AUEST0835	BE469419	ENSDART00000018503	6	9,055,562	1.00	25	15.5
AUSNP000058	Ctg_3435	ENSDART00000004656	6	13,058,847	1.00	25	26.9
AUEST0929	BM494953	ENSDART00000065502	6	3,510,301	0.84	25	39.7
AUSNP000074	Ctg_4582	ENSDART00000056319	6	53,324,672	0.25	17	3.0
AUEST0051	BM425105	ENSDART00000003898	6	14,085,842	0.20	9	3.9
AUEST0608	BM496609	ENSDART00000052318	7	24,276,447	0.54	20	39.8
AUEST0769	BM496763	ENSDART00000100149	7	29,092,776	0.17	20	23.8
AUEST0152	BE212675	ENSDART00000075757	7	34,233,565	0.72	27	0.0
AUEST0918	BM439064	ENSDART00000074463	7	24,815,798	1.00	21	13.6
AUEST0805	CB936968	ENSDART00000052539	7	32,892,667	1.00	8	36.0
AUSNP000083	Ctg_0030	ENSDART00000027000	7	2,534,611	1.00	8	21.3
AUEST0027	BM438274	ENSDART00000062702	8	26,857,785	0.45	8	24.7
AUEST0376	CF262727	ENSDART00000099025	8	28,749,949	0.38	8	17.3
AUEST0945	BM495553	ENSDART00000083790	8	33,771,883	0.23	8	28.8
AUSNP000032	Ctg_1974	ENSDART00000099708	8	22,251,295	0.41	8	24.4
AUSNP000060	Ctg_3638	ENSDART00000022074	9	41,386,855	1.00	27	23.4
AUEST0100	AF396747	ENSDART00000100386	9	34,893,437	1.00	9	3.8
AUSNP000015	Ctg_0867	ENSDART00000101338	9	21,792,056	1.00	9	3.8
AUSNP000017	Ctg_0881	ENSDART00000006948	9	27,291,927	1.00	9	0.0
AUSNP000030	Ctg_1591	ENSDART00000101985	9	15,176,111	1.00	9	2.7
AUSNP000061	Ctg_3648	ENSDART00000100022	10	25,016,652	0.58	1	60.3
AUEST0086	BM028141	ENSDART00000104260	11	9,753,944	0.64	27	25.0
AUEST0373	CF262754	ENSDART00000035560	11	26,287,029	0.12	27	47.7
AUEST0696	CK413701	ENSDART00000087597	11	31,179,554	0.47	27	37.4
AUSNP000014	Ctg_0865	ENSDART00000104360	11	5,177,192	1.00	27	47.5
AUSNP000065	Ctg_3707	ENSDART00000030103	11	9,704,698	1.00	27	25.0
AUEST0017	BE468998	ENSDART00000026017	11	33,770,768	0.26	15	21.0
AUSNP000085	Ctg_1136	ENSDART00000103368	11	27,142,612	0.48	15	33.4
AUSNP000033	Ctg_2272	ENSDART00000054788	12	35,429,324	0.71	23	11.6
AUEST0265	CF262438	ENSDART00000022684	13	38,174,389	0.74	3	0.0
AUEST0758	CB938230	ENSDART00000043312	13	38,246,633	0.10	3	13.0
AUSNP000040	Ctg_2695	ENSDART00000057774	13	4,030,776	0.53	3	79.3
AUEST0678	CK413486	ENSDART00000101853	13	14,053,231	1.00	21	62.8
AUSNP000054	Ctg_3193	ENSDART00000102941	13	407,677	0.24	24	28.6
AUSNP000019	Ctg_1050	ENSDART00000061001	14	55,809,901	1.00	2	52.5
AUSNP000016	Ctg_0878	ENSDART00000061001	14	55,809,901	1.00	29	0.0
AUSNP000035	Ctg_2393	ENSDART00000039660	14	22,980,719	1.00	29	51.5
AUSNP000071	Ctg_4192	ENSDART00000079608	14	18,466,098	1.00	29	36.2
AUSNP000073	Ctg_4466	ENSDART00000023540	14	38,067,562	0.42	29	47.4
AUEST0302	CF261566	ENSDART00000020961	14	53,554,821	0.11	4	70.1
AUSNP000068	Ctg_3792	ENSDART00000105389	14	53,613,423	0.91	4	70.4
AUEST0472	BM496853	ENSDART00000063783	15	35,442,248	0.55	6	71.6
AUSNP000078	Ctg_5097	ENSDART00000019330	15	9,862,693	1.00	6	15.1
AUEST0377	CF262687	ENSDART00000020363	16	20,391,653	0.40	2	115.3
AUSNP000007	Ctg_4213	ENSDART00000081477	16	3,876,888	1.00	6	0.0
AUEST0436	CK414043	ENSDART00000081259	16	5,590,055	0.33	20	0.0
AUEST0220U	CB937920	ENSDART00000081649	16	2,253,445	0.52	11	47.9
AUEST0936	BM495325	ENSDART00000049323	16	7,467,887	0.50	11	3.7
AUSNP000038	Ctg_2583	ENSDART00000058965	16	24,388,825	1.00	11	18.9
AUSNP000052	Ctg_3158	ENSDART00000058945	16	25,554,914	1.00	11	19.9
AUEST0032	BM424544	ENSDART00000058385	16	43,054,577	0.40	19	40.1
AUSNP000066	Ctg_3768	ENSDART00000078310	16	22,069,295	0.88	19	18.1
AUSNP000034	Ctg_2379	ENSDART00000064739	17	2,086,675	1.00	7	9.6
AUSNP000070	Ctg_4140	ENSDART00000064633	17	6,482,607	0.28	7	48.0
AUEST0132	BM424646	ENSDART00000053440	18	45,420,729	0.23	11	40.6
AUEST0288	CB937073	ENSDART00000032151	18	21,353,197	0.62	21	61.5
AUEST0771	BM496501	ENSDART00000052556	19	12,650,517	0.11	6	18.2
AUEST0067	BM497044	ENSDART00000062518	19	267,404	0.35	4	94.1
AUSNP000010	Ctg_0286	ENSDART00000023156	19	40,605,399	1.00	13	54.0
AUEST0138	BM028228	ENSDART00000104083	19	14,992,257	0.44	25	28.8
AUSNP000049	Ctg_3094	ENSDART00000052421	19	15,217,159	1.00	25	32.5
AUEST0266	CF262406	ENSDART00000058527	20	20,006,535	0.32	18	71.9
AUEST0406	BM439180	ENSDART00000032393	20	24,132,370	0.92	26	38.4
AUSNP000021	Ctg_1207	ENSDART00000053208	21	36,366,077	0.92	2	52.5
AUSNP000046	Ctg_3032	ENSDART00000040598	21	4,298,522	1.00	2	63.8
AUSNP000053	Ctg_3179	ENSDART00000055325	21	39,207,385	1.00	2	111.3
AUEST0052	BM495288	ENSDART00000020174	21	31,406,378	0.60	21	47.2
AUEST0635U	BM496516	ENSDART00000015576	21	44,368,280	0.34	26	18.9
AUEST0451	CK424102	ENSDART00000063133	22	9,212,561	0.37	20	48.7
AUEST0417	BM494174	ENSDART00000048775	22	20,284,919	1.00	27	49.9
AUSNP000055	Ctg_3226	ENSDART00000062618	22	13,542,614	1.00	27	47.2
AUSNP000079	Ctg_5104	ENSDART00000076082	22	35,077,720	1.00	27	47.2
AUEST0210	CB939628	ENSDART00000059140	22	7,599,621	0.59	15	0.0
AUSNP000088	Ctg_1769	ENSDART00000092082	22	33,774,628	0.78	15	28.8
AUEST0509	CK412708	ENSDART00000085054	23	30,669,614	0.68	28	76.8
AUSNP000022	Ctg_1221	ENSDART00000104618	23	15,796,134	1.00	28	64.1
AUSNP000024	Ctg_1260	ENSDART00000081215	23	7,812,918	1.00	28	60.9
AUEST0066	BM027884	ENSDART00000025414	23	20,600,486	0.94	3	70.9
AUSNP000003	Ctg_0621	ENSDART00000077539	23	33,339,203	1.00	15	17.4
AUSNP000004	Ctg_1691	ENSDART00000009337	23	21,056,564	1.00	17	2.3
AUEST0814	CB937452	ENSDART00000066630	24	23,314,688	0.14	19	24.8
AUEST0062	BE469322	ENSDART00000039485	25	28,735,776	0.65	29	92.6
AUSNP000011	Ctg_0381	ENSDART00000021006	25	6,532,907	1.00	29	96.1
AUSNP000018	Ctg_1045	ENSDART00000064204	25	13,669,875	1.00	29	47.4
AUSNP000043	Ctg_2875	ENSDART00000005627	25	32,398,863	0.22	29	96.1
AUEST0043	AF063836	ENSDART00000073566	25	18,547,487	1.00	4	36.6
AUEST0126	BM028849	ENSDART00000018751	Unassigned	32,254	0.12	28	88.2
AUEST0685	CK413603	ENSDART00000092525	Unassigned	919	1.00	28	42.5
AUEST0716	CK413890	ENSDART00000082614	Unassigned	123,432	0.21	16	10.8
AUSNP000069	Ctg_4051	ENSDART00000013310	Unassigned	171,790	1.00	16	5.9
AUEST0242	CF261514	ENSDART00000097310	Unassigned	29,480	0.49	13	0.0
AUEST0064	AF410785	ENSDART00000098979	Unassigned	34,198	0.23	7	41.7
AUEST0476	BM496810	ENSDART00000098973	Unassigned	169,711	1.00	7	30.1
AUEST0383	CF262296	ENSDART00000053700	Unassigned	2,733	0.28	25	13.6

Marker loci were named with the prefix AUEST for gene-associated microsatellites and AUSNP for gene-associated SNPs. GID is the GenBank identifier for the gene (accession numbers for ESTs); for SNPs, the contig number from which the SNP was identified is given. The ENSEMBL ID column is the sequence ID of the zebrafish genome sequence homologous to the specific locus. The E-value column describes the similarity between the catfish gene and the zebrafish gene, but is encoded: e.g., 0.74 = e⁻⁷⁴; 1 ≤ e⁻¹⁰⁰; 0.27 = e⁻²⁷, etc.