ERISdb: a Database of Plant Splice Sites

General
Orthologs
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

...tctactggtactgtgagaaagttcacatttattgtgatcattgatttagttcatacattttaagattattttgtgtttcattgtatttcctcaactctagGTTAGGGCAACTGCAAGAACTTGCTATAGAATGTTTGCAAAGACATGGCCTGAGCGTTCACGCCGTCTTTTTATGTTATTTGATCCTGCGATACAGAGG

Basic information

species	Zea mays
transcript	GRMZM2G052078_T01
intron #	11
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G052078_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os04g42840.1 (Oryza sativa), 3'ss of exon 11

tctactggta-ctgtgagaaagttcacatttattgtgatcattg--atttagttcatacattttaagattattttgtgtttcattgtatttcctcaactcta--gGTTAGGGCAACTGCAAGAACTTGCTATAGAATGTTTGCAAAGACATGGCCTGAGCGTTCACGCCGTCTTTTTATGTTATTTGATCCTGCGATACAGAGG
  ||||  ||   | |  |   |     ||||| |  || ||||   ||| |   ||||   | | ||||| ||| ||||    ||| |||   ||| || |  |||  | |||||||| |||| ||| |||||| ||||||||||||||||||||||||||||||| || |||||||||| |||||||||||| |||||||||
--tactattaatcgagcaagcatcggtttttatgggcattattgttgtttcggcaatactcatgatgattactttctgtta---tgtctttttacaattccacagGTCCGTGCAACTGCTAGAAGTTGTTATAGACTGTTTGCAAAGACATGGCCTGAGCGTTCACGTCGGCTTTTTATGTCATTTGATCCTGCTATACAGAGG

upper sequence: GRMZM2G052078_T02 (Zea mays), 3'ss of exon 11
lower sequence: AT2G20190.1 (Arabidopsis thaliana), 3'ss of exon 11

----tctactggtactgtgagaaa--gttcacatttattgtgatcattgatttagttcatacattttaagattattttgtgtttcattgtatttcctcaactctagGTTAGGGCAACTGCAAGAACTTGCTATAGAATGTTTGCAAAGACATGGCCTGAGCGTTCACGCCGTCTTTTTATGTTATTTGATCCTGCGATACAGAGG
    | | |    | ||| | |||   ||   ||||| |||  |       |   |   | |  | |   |||       |||| | | ||||     ||    ||||  |||||||||| ||||  ||||| |||||||||||||| || ||||| || ||||| |||||  | |||  ||  ||||| ||||  || || |||
atgttttgcatcaattgtaacaaatgatttgtatttactgtattgcccagctatctctctcccatgtgccattgaa--aggttttaatatattg----aataacagGTGCGGGCAACTGCTAGAATGTGCTACAGAATGTTTGCAAAAACTTGGCCGGATCGTTCTCGCCGGTTGTTTTCGTCCTTTGACCCTGTCATTCAAAGG

RNA-Seq data

ATGC Supported by RNA-Seq exonic block that spans over the splice site

atgs Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.

Found data for 4 RNA-Seq libraries.

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 101

TCTGATACTGGAGTATTGGGCTGATGCCTCAGAAATACAACGTTCAGCTGATTTATATGAGGATATGATAAAATGCTGTGTCGCAGATGCGATGAGCGAGgtatgatcaa ... tcaactctagGTTAGGGCAACTGCAAGAACTTGCTATAGAATGTTTGCAAAGACATGGCCTGAGCGTTCACGCCGTCTTTTTATGTTATTTGATCCTGCGATACAGAGG

Block sizes: 44 (upstream exon), 49 (downstream exon)
Score: 34

Block sizes: 46 (upstream exon), 47 (downstream exon)
Score: 37

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 69

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ttagttcatacattttaagattattttgtgtttcattgtatttcctcaactctagGTTAGGGCAACTGCAAGAACTTGCTATAGAATGTTTGCAAAGACATGGCCTGAGCGTTCACGCCGTCTTTTTATGTTATTTGATCCTGCGATACAGAGG

                                      tatttcctc  CT-rich tract
     tcatacattttaagat  TA-rich tract

Data associated with selected splice site

Sequence

Basic information

Orthologous splice sites

RNA-Seq data