Table 2.

Integration of the ESTs in the RH and Linkage Maps of the Rat Autosomes and Synteny Conservation With the Mouse Genome

		RH mapping						Sequence homology (BLAT)^e
RNO	Total^a	Mapped^b	Discordant mapping	Resolved positions^c	Resolved genetic positions^d	Rat genome	Discordant RH-BLAT	Mouse genome	Both genomes	Synteny groups
1	1320	1095	58	271	192	1014	63	793	751	5
2	775	537	37	201	178	491	21	415	382	3
3	598	414	10	174	135	379	13	331	313	1
4	757	443	43	98	53	411	12	356	339	2
5	620	501	40	145	106	466	27	395	374	1
6	429	406	26	103	83	366	40	303	277	3
7	604	550	4	145	107	485	22	423	387	3
8	606	560	17	172	112	496	16	448	412	1
9	341	287	5	75	44	259	11	212	198	2
10	723	619	2	152	118	565	17	501	466	3
11	308	256	35	77	34	237	6	195	183	1
12	281	270	5	81	40	251	16	186	175	1
13	324	310	5	78	32	273	8	257	233	1
14	271	254	2	65	35	232	11	179	169	2
15	381	239	12	59	35	213	14	186	168	1
16	321	286	1	65	24	260	7	229	213	2
17	604	260	0	63	46	235	4	198	185	3
18	298	247	0	55	47	217	12	188	174	1
19	230	163	0	38	37	152	6	126	120	1
20	276	255	0	54	48	222	7	187	169	2
Total	10,067	7952	303	2171 (27%)	1506 (19%)	7224	333	6108	5688	39

↵a Number of ESTs whose RH scores were extracted from the RHdb web site (http://corba.ebi.ac.uk/Rhdb)
↵b Number of ESTs successfully mapped to our RH framework maps (Watanabe et al. 1999)
↵c ESTs which map to resolved positions defining framework RH positions (Watanabe et al. 1999)
↵d ESTs which map to the resolved positions defining both framework positions of the RH map (Watanabe et al. 1999) and genetic loci in the linkage map derived from the BN × GK intercross (Gauguier et al. 1996)
↵e EST markers mapped reliably to the rat and mouse genomic sequences using BLAT (Kent 2002). Details of ESTs that are assigned to different chromosomes by RH mapping and BLAT are available in our data repository (http://www.well.ox.ac.uk/rat_mapping_resources)

Integration of the Rat Recombination and EST Maps in the Rat Genomic Sequence and Comparative Mapping Analysis With the Mouse Genome