ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGAGCCAAGACGAACCATGAATGCAAGTGAGTGTGTTGCGCGAGGATGTGCTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctccttagcttaccttagtatatctgttttaagctactatgggttggattatactagactagtctatatcttaaactgctgtctatgcttgct...

Basic information

species	Zea mays
transcript	GRMZM2G023232_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G023232_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g08840.1 (Oryza sativa), 5'ss of exon 1

GGAGCCAAGACGAACCATGAATGCAAGTGAGTGTGTTGCGCGAGGATGTGCTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctccttagcttaccttagtatatctgttttaagctactatgggttgg--attatactagactagtctatatcttaaactgctgtctatgcttgct
||| || ||  | || |||||||||||||| |||||||| || ||||| ||||||||||||||| |||| ||||||||||||||||| || |||||  |||||     |  |    |||  ||  | |    ||||    || |  | |  |    ||| |    || |    | |   | |   ||     ||  || |  
GGAACCGAGGAGGACTATGAATGCAAGTGAATGTGTTGCCCGGGGATGCGCTCTTCAGTGTGCTGTTCTTAGCCCCACTTTCAAAGTCCGGGAATTTGAGgtactgatttatctatttaagtttctgttgacgtttgtttctgccgtagtgtatctattttgtctgattctaatgttcttgattatgtaacgtaaactag--

upper sequence: GRMZM2G023232_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA15G01750.1 (Glycine max), 5'ss of exon 2

GGAGCCAAGACGAACCATGAATGCAAGTGAGTGTGTTGCGCGAGGATGTGCTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctccttagcttaccttagtatatctgttttaagctactatgggttggattatactagactagtctat--atcttaaactgctgtctatgcttgct----
|||||| || || || |||||||| ||||||||||||||  | || |||||  | |||||||| ||||||||||| ||||| ||||| || || || ||||||  |  |      | | || |  ||||    ||| ||  || |     | | | | |   |||    | ||   ||| |  ||| | |  | |  |   |    
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGCTGTGCATTGCAGTGTGCAATTCTCAGCCCAACTTTTAAAGTACGGGAGTTTCAGgtaaaaattttc---cctgccat--tataatgttttaaaattattcaatatggaactgt-tcagatctttttacgaatcatggacttcagcattttttattttttt

upper sequence: GRMZM2G023232_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 2

GGAGCCAAGACGAACCATGAATGCAAGTGAGTGTGTTGCGCGAGGATGTGCTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctccttagct-taccttagtatat----ctgttttaagctact----atgggttgga------ttatact--agactagtctatatcttaaactgctgtctatgcttgct--------
|||||| || || || ||||||||||||||||||||  || | ||||||||  | |||||||| |||||||| || || || ||||| || ||||||||||||     | | || || | | | |||| ||     | ||||||  ||||    |     | ||      |||||||  ||  ||    |    | | | |    | |||  ||  |        
GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaaatgtcgttattttaatgtacttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag

upper sequence: GRMZM2G023232_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT1G79930.1 (Arabidopsis thaliana), 5'ss of exon 2

GGAGCCAAGACGAACCATGAATGCAAGTGAGTGTGTTGCGCGAGGATGTGCTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctcctta-----gcttaccttagtatatctgttttaagctact----atgggttgga------ttatact--agactagtctatatcttaaactgctgtctatgcttgct--------
|||||| || || || ||||||||||||||||||||  |  | ||||||||  | |||||||| |||||||| || || || ||||| || ||||||||||||   | | | ||     |||||  | | | |   | |||| |  ||||    |     | ||      |||||||  ||| ||    |    | | | ||   | |||  ||  |        
GGAGCCCAGGCGGACAATGAATGCAAGTGAGTGTGTGTCAAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtgcatatctacgcttaagtaaatgtcgttattttcatgtacttgtaagcaactcgagaacttttatactctagattatctgactagtcatattgtgatttattttttgttctcttag

upper sequence: GRMZM2G023232_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv09s0002g04680.t01 (Vitis vinifera), 5'ss of exon 1

GGAGCCAAGACGAACCATGAATGCAAGTGAGTGTGTTGCGCGAGGATGTGCTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctcctt-agcttaccttagtatatctgttttaagctactatgggttggattatactagactagtctatatcttaaactgctgtctatgcttgct-
||| || || || || |||||||||||||||||||| ||    || |||||||| || ||||| ||||| ||||| || || ||||||||||| || ||||||  |   | || | ||||  || |||| |   |||     |    ||   || | |||      ||  | ||   || |    | |   | | |||| | 
GGAACCTAGGCGGACAATGAATGCAAGTGAGTGTGTGGCCAAGGGCTGTGCTCTACAATGTGCAATTCTTAGCCCAACATTTAAAGTGCGAGAGTTTCAGgtaaaactcctttcaacttaggtt-gtatcttattttctttatttattgaagtgaaatatgtgttgcttttttacggct-attgagttaaatttccttggtt

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|211342057|gb|FL086719.1|FL086719

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|60348239|gb|DN215212.1|DN215212

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGATACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|211491249|gb|FK959664.1|FK959664

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|211491250|gb|FK959665.1|FK959665

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|32939254|gb|CF044073.1|CF044073

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|18175444|gb|BM350773.1|BM350773

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|18163486|gb|BM333325.1|BM333325

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|211494120|gb|FK959666.1|FK959666

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|211491247|gb|FK959662.1|FK959662

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|22520708|gb|BU079519.1|BU079519

EST:     CTCTTCAG-GTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|21987845|gb|BQ779373.1|BQ779373

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

EST: gi|78106114|gb|DV524532.1|DV524532

EST:     CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAG                         GTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC
genomic: CTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCC

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: 433

GGAGCCAAGACGAACCATGAATGCAAGTGAGTGTGTTGCGCGAGGATGTGCTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctc ... aaattttcagGTTAATGATGGGTTTCCTTTCTCAATTGCATTGTCATGGAATGGAGACTCCCAGAACACCCCCCAACAAACCCTTGTATTCCCAAAGGGGAATGCAATTC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 235

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 203