Characterization of accessory genes in coronavirus genomes

Table 2 CDS annotations extracted from Genbank, with ORF names standardized according to the SARS-CoV-2 nomenclature

Name	Start	Stop	Length
Bat-CoV
ORF1a^a	265	13,398	13,134
ORF1b^a	13,398	21,485	8086
S	21,492	25,217	3726
ORF3a	25,227	26,051	825
ORF3b	25,648	25,992	345
E	26,076	26,306	231
M	26,357	27,022	666
ORF6	27,033	27,224	192
ORF7a	27,232	27,600	369
ORF7b	27,597	27,731	135
ORF8	27,738	28,103	366
N	28,118	29,386	1269
Pangolin-CoV
ORF1a	249	13,427	13,179
ORF1b	13,427	21,514	8086
S	21,522	25,331	3810
ORF3a	25,341	26,168	828
E	26,193	26,420	228
M	26,468	27,136	669
6	27,147	27,332	186
7a	27,339	27,704	366
7b	27,701	27,832	132
8	27,839	28,202	366
N	28,218	29,471	1254
Civet-CoV
ORF1a	239	13,366	13,128
ORF1b	13,366	21,459	8092
S	21,466	25,233	3768
ORF3a	25,242	26,066	825
ORF3b	25,663	26,127	465
E	26,091	26,321	231
M	26,372	27,037	666
ORF6	27,048	27,239	192
ORF7a	27,247	27,615	369
ORF7b	27,612	27,746	135
ORF8	27,753	28,121	369
N	28,123	29,391	1269
ORF9b	28,133	28,429	297
ORF9c	28,586	28,798	213
SARS-CoV-2
ORF1a	251	13,453	13,203
ORF1b	13,453	21,538	8086
S	21,521	25,369	3849
ORF3a	25,378	26,205	828
ORF3b^c	25,509	25,680	172
E	26,230	26,457	228
M	26,508	27,176	669
ORF6	27,187	27,372	186
ORF7a	27,379	27,744	366
ORF7b^c	27,741	27,872	130
ORF8	27,879	28,244	366
ORFN	28,259	29,518	1260
ORF9b^c	28,269	28,562	294
ORF9c^c	28,719	28,940	222
ORF10	29,543	29,659	117
SARS-CoV
ORF1a	265	13,398	13,134
ORF1b	13,398	21,485	8086
S	21,492	25,259	3768
ORF3a	25,268	26,092	825
ORF3b	25,689	26,153	465
E	26,117	26,347	231
M	26,398	27,063	666
ORF6	27,074	27,265	192
ORF7a	27,273	27,641	369
ORF7b	27,638	27,772	135
ORF8a	27,779	27,898	120
ORF8b	27,864	28,118	255
N	28,120	29,388	1269
ORF9b	28,130	28,426	297
ORF9c^b	28,583	28,793	211

^a For convenience, ORF1ab is split into 2 regions corresponding the ORF1ab gene regions upstream and downstream of the frameshift
^b SARS-CoV annotation for ORF9c was propagated from Genbank entry AY274119: SARS-CoV isolate Tor2, where it is annotated as ORF14
^c SARS-CoV-2 annotations for ORF3b, ORF7b, ORF9b and ORF9c were propagated from Genbank entry MN985325: Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV/USA-WA1/2020

ISSN: 1743-422X