Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility

Ning, Luyun; Wang, Hao; Li, Dianrong; Li, Yonghong; Chen, Kang; Chao, Hongbo; Li, Huaixin; He, Jianjie; Li, Maoteng

doi:10.1186/s12864-020-07163-z

Table 1 Summary of the chromosomal location of BnRFL genes and characteristics and subcellular localization of the encoded proteins

From: Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility

A. thaliana gene	A. thaliana ID	B. napus gene	Chr.	Gene position		PPR number	Protein Length (AA)	pI [28]	Molecular weight (Da) [28]	GRAVY [28]	Subcellular location
A. thaliana gene	A. thaliana ID	B. napus gene	Chr.	Start	End	PPR number	Protein Length (AA)	pI [28]	Molecular weight (Da) [28]	GRAVY [28]	Pprowler [29]	TargetP [30]
AtRFL1	At1G06580	BnRFL1	C8	45,301,508	45,303,299	11	497	8.55	56,608.61	0.183	M^b	M
AtRFL2	At1G12300	BnRFL2	A9	42,781,901	42,784,196	15	637	5.97	70,948.87	0.026	M	M
		BnRFL3	A9	42,776,628	42,778,959	15	647	6.31	71,868.6	0.038	M	M
		BnRFL4	C8	42,874,876	42,877,570	14	640	5.61	71,088.91	0.032	M	M
		BnRFL5	C8	42,856,820	42,859,076	15	626	6.2	69,734.49	0.01	M	M
		BnRFL6	A9	42,851,654	42,853,921	15	629	8.33	69,640.9	0.16	M	M
		BnRFL7	A1	25,159,038	25,161,294	15	626	6.16	70,426.2	0.001	M	S^c
		BnRFL8	C8	42,947,165	42,949,404	15	621	7.34	68,638.38	0.116	M	M
AtRFL3	At1G12620	BnRFL9	A8	25,819,298	25,821,504	14	612	6.65	68,324.47	−0.043	M	M
		BnRFL10	Un^a	20,135	22,471	15	648	8.21	72,194.66	0.043	—^d	C^e
		BnRFL11	A9	42,353,345	42,355,681	15	648	8.2	72,022.51	0.067	–	C
		BnRFL12	C8	17,918,175	17,920,367	15	608	7.37	67,610.72	−0.023	M	M
		BnRFL13	A9	42,707,709	42,710,051	15	650	8.41	73,339.39	−0.054	M	M
		BnRFL14	C8	17,950,498	17,951,759	8	323	4.67	35,505.17	0.06	–	–
		BnRFL15	C8	42,022,999	42,023,776	5	215	5.29	23,581.51	0.067	M	S
AtRFL4	At1G12700	BnRFL16	C8	42,872,137	42,874,315	14	604	5.47	67,048.93	0.02	M	M
AtRFL4	At1G12700	BnRFL17	A9	42,773,730	42,775,903	14	603	6.57	66,969.91	−0.018	M	M
AtRFL7	At1G62680	BnRFL18	Un	30,312	32,846	12	538	8.45	60,152.19	0.016	M	C
		BnRFL19	A9	7,486,280	7,488,209	12	535	8.56	59,967.03	0.012	M	M
		BnRFL20	A9	9,401,981	9,403,866	12	523	8.33	58,558.11	−0.002	M	M
		BnRFL21	A9	9,446,842	9,448,591	11	440	4.81	48,891.56	0.127	–	M
AtRFL8	At1G62720	BnRFL22	A9	7,519,673	7,521,422	13	485	8.39	55,092.25	−0.012	M	C
AtRFL11	At1G62930	BnRFL23	C1	45,473,258	45,480,422	15	487	6.36	55,189.36	−0.013	S	S
AtRFL11	At1G62930	BnRFL24	A9	9,204,272	9,204,884	4	178	5.29	20,006.32	0.001	–	–
AtRFL12	At1G63070	BnRFL25	A9	9,203,551	9,204,328	4	188	5.47	21,000.35	−0.047	–	–
AtRFL13	At1G63080	BnRFL26	C4	53,751,551	53,751,949	2	107	6.26	11,658.37	−0.133	–	–
AtRFL13	At1G63080	BnRFL27	C4	53,761,784	53,762,107	2	107	6.26	11,658.37	−0.133	–	–
AtRFL17	At1G63400	BnRFL28	C1	24,931,745	24,934,613	19	796	6.17	89,097.00	−0.119	M	C
AtRFL17	At1G63400	BnRFL29	A1	15,383,421	15,386,289	18	796	6.8	88,897.86	−0.12	M	C
AtRFL18	At1G64100	BnRFL30	A9	9,036,004	9,038,611	17	681	5.94	76,309.56	0.017	M	M
		BnRFL31	A9	9,033,346	9,035,550	17	681	5.94	76,309.56	0.017	M	M
		BnRFL32	C1	45,499,113	45,501,687	17	681	6.24	76,106.47	0.022	M	M
AtRFL19	At1G64580	BnRFL33	A9	8,665,312	8,667,139	12	507	9.1	57,063.97	−0.01	M	M
		BnRFL34	C5	40,329,839	40,331,444	10	445	9.16	50,074.12	0.009	–	–
		BnRFL35	Un	47,833	52,673	12	491	9.05	55,206.81	0.062	M	M
		BnRFL36	A9	9,201,254	9,203,025	12	491	9.04	55,221.77	0.036	M	M
		BnRFL37	Un	21,883	23,773	10	445	9.16	50,074.12	0.009	–	–
AtRFL20	At3G16710	BnRFL38	A1	29,342,555	29,344,457	12	506	8.64	57,356.77	0.032	M	M
AtRFL20	At3G16710	BnRFL39	Un	67,690	69,826	10	453	8.94	51,204.74	0.017	M	C
AtRFL21	At3G22470	BnRFL40	A8	25,799,162	25,801,437	13	631	6.99	70,631.48	0.008	M	M
		BnRFL41	C8	42,220,823	42,223,242	15	671	8.44	75,390.4	−0.045	M	–
		BnRFL42	A9	42,760,108	42,762,458	15	652	6.73	73,148.36	−0.005	M	M
		BnRFL43	C1	14,072,487	14,074,026	11	423	5.4	46,851.41	−0.088	–	–
		BnRFL44	A8	25,805,814	25,806,641	5	229	4.63	25,248.08	−0.064	–	–
		BnRFL45	C8	17,950,054	17,950,652	4	165	8.12	18,161.4	0.335	S	S
AtRFL22	At4G26800	BnRFL46	A1	11,953,788	11,955,598	10	502	8.86	56,499.9	−0.017	M	M
AtRFL22	At4G26800	BnRFL47	C1	20,149,199	20,151,006	11	501	8.94	56,441.83	0	M	M
AtRFL23	At5G16640	BnRFL48	Un	18,562	20,747	12	501	8.46	56,334.67	0.011	M	C
AtRFL23	At5G16640	BnRFL49	A10	15,694,475	15,696,271	11	498	8.73	56,128.71	0.018	M	C
AtRFL24	At5G41170	BnRFL50	Un	83,037	85,098	11	481	8.76	54,110.04	0.023	M	M
		BnRFL51	A4	11,026,724	11,028,448	11	478	8.84	53,924	0.064	M	M
		BnRFL52	A9	27,526,100	27,529,023	16	811	7.06	92,429.64	−0.364	M	M
		BnRFL53	C7	55,839,984	55,843,142	14	821	7.89	93,225.71	−0.308	M	M
Rf-PPR592 [11]						14	592	7.81	67,340.37	−0.071	M	M
Rf4 [14]						18	782	6.56	86,282.74	−0.037	M	M
Rf5 [15]						17	791	6.1	87,614.43	−0.013	M	M
Rf6 [16]						15	798	8.4	88,617.48	−0.096	M	M
Rfo [12]						17	687	4.96	76,500.42	0.022	M	M

a Unplaced Scaffold
b Mitochondrion
c Secretory pathway
d Any other location
e Chloroplast

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