Chromosome-scale assembly and annotation of the perennial ryegrass genome

BMC Genomics

Table 1 Classification of LTR retrotransposons of the perennial ryegrass genome

Order	Superfamily	Code	All transposons		Full length tranposons
			Nr.	%	Nr.	%
Class I
LTR	Gypsy	RLG	227472	72.07	30760	73.09
	Copia	RLC	63194	20.02	7881	18.72
	-	RLX	1193	0.38	721	1.71
LINE	-	RIX	1072	0.34	221	0.53
	L1	RIL	4	<0.01	4	<0.01
	R2	RIR	3	<0.01	2	<0.01
SINE	-	RSX	1095	0.35	4	<0.01
Class II
	CACTA	DTC	15579	4.94	229	0.54
	Pif-Harbinger	DTH	1942	0.62	45	0.17
	Mutator	DTM	1247	0.39	33	0.08
	Tc1-Mariner	DTT	375	0.11	12	0.03
	Helitron	DHH	79	0.02	7	0.02
	hAT	DTA	10	<0.01	-	-
	-	DTX	9	<0.01	-	-
	-	DXX	37	0.01	-	-
Other/Unknown
	-	XXX	1954	0.62	2165	5.14
Total			315265		42085

ISSN: 1471-2164