Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes

BMC Genomics

Table 1 Overview of de novo transcript assembly for A. carolinensis based on RNA-Seq data from 14 adult and embryonic tissues and deposited EST sequence data

*De novo* RNA-Seq	# Reads	*De novo* assembled transcripts	Transcripts aligning to Anocar2.0 assembly	PASA assembled transcripts
Embryo-28 somite stage	52,548,024	83,627	81,032	22,670
Embryo-38 somite stage	55,048,179	99,578	95,753	24,595
Regenerating tail tip	122,099,352	92,275	88,150	22,278
Regenerating tail base	31,721,054	78,005	73,516	24,897
Original tail	109,404,060	96,450	91,601	20,240
Adrenal	55,858,836	110,349	101,449	20,482
Brain	32,518,977	203,519	192,407	33,912
Dewlap skin	31,785,178	81,598	76,866	25,853
Embryos (pooled)	59,681,427	118,949	110,124	19,969
Heart	34,068,834	154,255	144,617	26,582
Liver	50,782,350	89,010	81,441	21,549
Lung	48,723,049	272,071	255,035	37,985
Ovary	35,139,647	80,306	75,807	26,827
Skeletal Muscle	42,707,477	75,006	69,250	18,857
Total	762,086,444	1,634,998	1,537,048	346,696
EST Library (NCBI)	# Sequences	NCBI defined UniGene groups	Transcripts aligning to Anocar2.0 assembly	PASA assembled transcripts
Brain	19,139	5,631	9,991	1,715
Dewlap skin	19,809	5,453	10,180	2,216
Embryo	38,923	8,714	9,991	4,158
Mixed Organ	19,863	5,657	9,327	2,053
Ovary	19,410	5,467	7,394	3,737
Regenerating Tail	19,851	6,751	11,064	6,757
Testis	19,807	4,261	8,677	2,594
Total	156,802	41,934	66,624	23,230

ISSN: 1471-2164