Transcriptome landscape of the human placenta

BMC Genomics

Table 2 Novel transcriptional active regions (TARs) and exons discovered in placental tissues

	Amnion	Chorion	Decidua
Transcripts
Total transcripts	92,265	107,371	105,158
Multi-exon^# transcripts	69,721	69,858	75,958
Perfect match with annotated transcripts (ignoring transcript start and end)	21,288	22,724	25,077
Total TARs*	13,469	16,987	15,158
Novel TARs (not overlapping with the combined annotation of Ensembl, UCSC, RefSeq and Vega genes)	604	1,007	896
Internal exons in TARs overlapping annotated transcripts
Total exons	93,506	103,356	100,003
Annotated exons	75,154	81,591	83,283
Novel exons with one end (5' or 3') shared with an annotated exon	16,907	20,121	15,246
Novel exons overlapping with an annotated exon but with no shared 5' or 3' end	950	1,093	876
Novel exons not overlapping with any annotated exons	494	537	585

Analysis was performed using software Scripture for ab initio reconstruction of transcripts for each placental tissue after sequence mapping with Tophat.
*TAR: Transcriptional Active Region after merging overlapping transcripts
^# Single exon transcripts were not included in all the downstream analysis

ISSN: 1471-2164