ERISdb: a Database of Plant Splice Sites

General
Orthologs
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

gtacgtacggtacaaacatttcacttctccatatccaagtcacatacactccatatccatgtcattggttgtcggtgcagGTTTATGCCATGCCGGTGTTTGACATGATAGAGACGGTGCTGGTCAAGAAAATGAGGTTCGCTCCGAGCCTCACGCTCCGTCTTATTGCCCGGAGCGTCT

Basic information

species	Zea mays
transcript	GRMZM2G149216_T01
intron #	3
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G149216_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G22590.1 (Glycine max), 3'ss of exon 4

----------gtac-gtacggtacaaacatttcacttctccatatccaagtcac------atacactccatatccatgtcattggt---tgtcggtgcagGTTTATGCCATGCCGGTGTTTGACATGATAGAGACGGTGCTGGTCAAGAAAATGAGGTTCGCTCCGAGCCTCACGCTCCGTCTTATTGCCCGGAGCGTCT
          |||| ||    ||      ||| |||  || || |  |||| ||      | ||  || | ||   ||   || ||   ||| | || || ||||||| ||||| |||||||||||||| || |||||| ||||||||||| |||  ||||  || |||   | ||| ||| || |||  || |  || |
taatgttctcgtactgtgtaataatttttttttactagtcaatgttaaagtaactagctaaaactatcaaaattgctgctttttgtgactgttgatgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACGGTGATGGTCAAGAAATTGAATTTCGAACCAAGCAGAATGCTTCGTTTTGTTGTACGTAATGTAT

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 2 RNA-Seq libraries.

Block sizes: 43 (upstream exon), 47 (downstream exon)
Score: 3

CGGCGTCGACGAGAACATCCTCATCACGCTCTCCAAGCCCAAGTGGCTCATTGCCCTCGCCAACATGATGGTCGTCGTCCATGTCATTGGCAGTTACCAGgtacgtacgg ... gtcggtgcagGTTTATGCCATGCCGGTGTTTGACATGATAGAGACGGTGCTGGTCAAGAAAATGAGGTTCGCTCCGAGCCTCACGCTCCGTCTTATTGCCCGGAGCGTCT

Block sizes: 43 (upstream exon), 47 (downstream exon)
Score: 15

Data associated with selected splice site

Sequence

Basic information

Orthologous splice sites

RNA-Seq data