Table 3 IsoCon-predicted transcripts of the nine ampliconic gene families. Columns show predictions shared between samples, separated by gene family and categorized as coding or non-coding. The calculated number of groups is shown, in comparison to known copy numbers from the reference genome and observed in human populations. Novel transcripts are those that do not have a perfect alignment to the NCBI transcript reference database, the numbers in parentheses indicate additional transcripts that have a perfect alignment only to ESTs, synthetic constructs, or in silico-predicted transcripts
From: Deciphering highly similar multigene family transcripts from Iso-Seq data with IsoCon
Gene family | Number of coding members annotated in the ref. 67 | IsoCon transcripts shared between samples, coding | IsoCon transcripts shared between samples, non-coding | Total number of inferred groups | Number of inferred coding groups | Novel transcripts | Predicted novel splice variants, coding | Predicted novel splice variants, non-coding | |
|---|---|---|---|---|---|---|---|---|---|
BPY | 3 | 2–3 | 1 | 0 | 1 | 1 | 0 (0) | – | – |
CDY | 4 | 2–4 | 3 | 2 | 2 | 2 | 1(1) | – | – |
DAZ | 4 | 2–5 | 5 | 1 | 3 | 3 | 5(0) | 4 | 1 |
HSFY | 2 | 2 | 0 | 0 | – | – | – | – | – |
PRY | 2 | 2–3 | 1 | 2 | 1 | 1 | 2(0) | – | 2 |
RBMY | 6 | 6–18 | 26 | 35 | 18 | 14 | 49(3) | 2 | 10 |
TSPY | 35 | 12–38 | 34 | 9 | 20 | 14 | 37(3) | 4 | 2 |
VCY | 2 | 2–3 | 1 | 0 | 1 | 1 | 0(0) | – | – |
XKRY | 2 | 2–3 | 1a | 0 | 1 | 1 | 0(0) | – | – |
Total | 32 | 32–79 | 72 | 49 | 51 | 38 | 94 | 10 | 15 |
