Alternative Splicing Encyclopedia of Human

● Alternative splicing counts of 5 types

RefSeq Ensembl A3SS 5,665 7,768 A5SS 3,637 4,713 SE 14,569 20,103 MXE 1,225 2,068 RI 1,822 5,152 Total 26,918 39,804

RefSeq Ensembl AS gene 15,058 22,183 Non-AS gene 12,720 35,590 Total 27,778 57,773 AS transcript 66,128 160,764 Non-AS transcript 12,720 35,590 Total 78,848 196,354

● miRNA binding AS sites

UCSC DB		Prediction tool
TargetScan		microRna.org		microT		TargetScan
Matched AS ID	miRNA	Matched AS ID	miRNA	Matched AS ID	miRNA	Matched AS ID	miRNA
2,329	7,055	1,529	1,308	2,329	7,055	348	140

● Nonsense-mediated decay (NMD)

Matched AS ID	NMD
	stop codon	cosmic	dbsnp
6,737	4,809	754	220

● Repeat

Interrupted		Microsatellite		RepeatMasker		SegmentalDups		SelfChain		SimpleRepeats
Matched AS ID	repeat	Matched AS ID	repeat	Matched AS ID	repeat	Matched AS ID	repeat	Matched AS ID	repeat	Matched AS ID	repeat
3,003	364	42	24	8,884	671	572	648	2,852	46	1,435	1

● Mutation around alternative splicing site

SPIDEX		dbSNP		COSMIC
Matched AS ID	variant	Matched AS ID	variant	Matched AS ID	variant
50,121	394,241	22,917	18,336	24,874	21,547

● Protein domain

Matched AS ID	Distinct protein domains
24,475	3,713

● Post-translational modification (PTM)

Matched AS ID	PTM feature
	Phosphorylation site	Ubiquitination site	Kinase Substrate	Methylation site	Sumoylation site	Acetylation site	Regulatory sites	O-GalNAc site	O-GlcNAc site
10,088	16,174	3,088	80	414	437	1,416	474	286	35

● Isoform-specific protein interaction

		Isoform-specific PPI	Single gene PPI	Single isoform PPI
PPI-level count	Ensembl	12,140	430	30,602
	RefSeq	13,226	458	30,461
Gene-level count	Ensembl	359	430	1,656
	RefSeq	390	458	1,588

● Isoform-specific subcellular localization

	Total gene ID	Subcellular localization
		2	3	4	>=5
RefSeq	1,327	214	147	43	80
Ensembl	1,105	235	97	40	24

● RNA-binding proteins (RBP)

Platform	RBP	Total sample	Splicing factor (SF)	SF sample
eCLIP-Seq	112	322	33	102
iCLIP-Seq	5	10	3	6
RIP-Seq	23	93	5	25
Total	135	425	38	133