| RNA-seq (24) |
Determination of transcript or gene structure or extent, inferred exon combination, splice variant existence |
| CAGE tags (25) |
Determination of transcription start sites, 5′ UTR extension |
| H3K4me3 methylation |
Determination of general 5′ completeness of transcripts or genes |
| CpG islands |
Determination of general 5′ completeness of transcripts or genes (in conjunction with other data) |
| Long read transcriptome data |
Splice variants; especially useful for genes with poor INSDC transcript support |
| Proteomics |
Determination of gene biotype, novel exons, novel protein termini. |
| Ribosome profiling |
Determination of translation start codons or the coding status of genes with questionable biotypes |
| Conservation in other species |
Determination of gene biotype, annotation of proteins with little or no data about gene function, determination of translation start codon |
| Conserved protein domains |
Determination of gene biotype, annotation of proteins with little or no data about gene function |
| PhyloCSF |
Determination of gene biotype, annotation of uncharacterized proteins |
| polyA-seq (26) |
Determination of 3′ completeness |
