ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGAAGAAAGTTAACAGTGGGCTGCTAAAGATGTACAAGGCTGAGGTGCTTGAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttgtagcgcttatatttttgctcgcctgtgttttggtgcccatgagttggtcttattagttcaatgttacaaccagtgttttaaaggcgtcgc...

Basic information

species	Zea mays
transcript	GRMZM2G058560_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G058560_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os06g11640.1 (Oryza sativa), 5'ss of exon 1

GGAAGAAAGTTAACAGTGGGCTGCTAAAGATGTACAAGGCTGAGGTGCTTGAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttgt-agcgcttatatttttgctcgcctgtgt-tttggtgcccatgagttggtcttattagttcaatgttacaac-cagtgttttaaaggcgtcgc
||||||| || ||||| |||||||| |||||||||||||||||||||||||||||||| ||||| |||||||||||||||||||| ||||| |||||||||||||  |  | | |  |  |   ||| |    |  ||| ||||||| |  |   |    ||| ||  |   |     | |  ||  | |   || |      
GGAAGAAGGTGAACAGCGGGCTGCTCAAGATGTACAAGGCTGAGGTGCTTGAGAAAGTGCCGATTATGCAGCATTTCCTCTTTGGTTCACTCATCAAATGgtatggatcatgaacattctttaatttaccttgcgatgtatttggtggcagttgttgatacttgtttatcacacaaagctatgcaaagataggaaagaac---

upper sequence: GRMZM2G058560_T01 (Zea mays), 5'ss of exon 1
lower sequence: AT4G08960.1 (Arabidopsis thaliana), 5'ss of exon 1

GGAAGAAAGTTAACAGTGGGCTGCTAAAGATGTACAAGGCTGAGGTGCTTGAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttgtagcgcttatatttttgctcgcctgtgttttggtgcccatgagttggtcttattagttcaatgttaca-accagtgttttaaaggcgtcgc-
|||||||||| || || ||  |||| |||||||| |  | ||| |||||||||||||| ||||| ||||||||||||||||||||||  || |||||||||||||| |  |  |  || |  |||||      | |    || |  | ||   ||     ||  |       |||    |   || | |  |  |  |    
GGAAGAAAGTGAATAGCGGTTTGCTTAAGATGTATAGAGTTGAAGTGCTTGAGAAAGTTCCGATTATGCAGCATTTCCTCTTTGGCTGGCTCATCAAATGgtatgattctt--cttttttccttttgtctcgtttttagctgatctctattgctttaaaatagaaacctttggttgtgtaatggtttgtcgattggattatc

upper sequence: GRMZM2G058560_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv18s0001g06050.t01 (Vitis vinifera), 5'ss of exon 1

GGAAGAAAGTTAACAGTGGGCTGCTAAAGATGTACAAGGCTGAGGTGCTTGAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttgtagcgctta-tatttttgctcgcctgtgttttggtgcccatgagttggtcttattagttcaatgttacaaccagtgttttaa-aggcgtcgc
|||| || || || |||||| |||| || ||||| || ||||||||| | ||||| || || || |||||||||||||| ||||| |  || ||||||||||||||    |     | | || ||   |  |  |||| ||         | ||||  |  ||     || |   |        ||||| |   ||  ||  
GGAACAAGGTGAATAGTGGGATGCTCAAAATGTATAAAGCTGAGGTGTTGGAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATGgtatgatcactgttaatgagtaattagccctgtatgtgattcatgcatttttagttcattataagtcatccacactttgcatcatgtttaattgggaatc--

upper sequence: GRMZM2G058560_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv18s0001g06200.t01 (Vitis vinifera), 5'ss of exon 1

GGAAGAAAGTTAACAGTGGGCTGCTAAAGATGTACAAGGCTGAGGTGCTTGAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttgtagcgctta-tatttttgctcgcctgtgttttggtgcccatgagttggtcttattagttcaatgttacaaccagtgttttaa-aggcgtcgc
|||| ||||| || |||||| |||| || ||||| || ||||||||| | ||||| || || || |||||||||||||| ||||| |  || ||||||||||||||    |     | | || ||   |  |  |||| ||         | ||||  |  ||     || |   |        ||||| |   ||  ||  
GGAACAAAGTGAATAGTGGGATGCTCAAAATGTATAAAGCTGAGGTGTTGGAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATGgtatgatcactgttaatgagtaattagccctgtatgtgattcatgcatttttagttcattataagtcatccacactttgcatcatgtttaattgggaatc--

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|60397805|gb|DN230621.1|DN230621

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|76928090|gb|DV171482.1|DV171482

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|110517352|gb|EE021939.1|EE021939

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTTTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|211349463|gb|FK984272.1|FK984272

EST:     GARAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGACTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAA-CT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|78124680|gb|DV543064.1|DV543064

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTTTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|88754763|gb|DY538904.1|DY538904

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCCCCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|71450169|gb|DR831219.1|DR831219

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|60359287|gb|DN226260.1|DN226260

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|78091613|gb|DV519987.1|DV519987

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|30032053|gb|CB833904.1|CB833904

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|71757955|gb|DR955892.1|DR955892

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|89250462|gb|DY622248.1|DY622248

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTTTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|74246225|gb|DT654139.1|DT654139

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|74242741|gb|DT650655.1|DT650655

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|91055335|gb|EB165753.1|EB165753

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|193501829|gb|AM937962.1|AM937962

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGACTAATAACATCTTTAGGGGAGCTCACCAATGATCCGTGAGAA-CT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|148961427|gb|EE012169.2|EE012169

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTTTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|16377488|gb|BI991960.1|BI991960

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|193502479|gb|AM937801.1|AM937801

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGACTAATAACATCTTTAGGGGAGCTCACCAATGATCCGTGAGAA-CT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|193502898|gb|AM937548.1|AM937548

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGACTAATAACATCTTTAGGGGAGCTCACCAATGATCCGTGAGAA-CT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

EST: gi|211070289|gb|FL462525.1|FL462525

EST:     GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATG                         GGAGGACTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAA-CT
genomic: GAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACT

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: 48 (upstream exon), 46 (downstream exon)
Score: 115

GGAAGAAAGTTAACAGTGGGCTGCTAAAGATGTACAAGGCTGAGGTGCTTGAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttg ... tttttttcagGGAGGATTAATAACATCTTTAGGGAAGCTCACCAATGATCCGTGAGAAACTCATGTATGATGTGAAGACTGGCGGTATAGTGGTGCTACTCAAAGTTTGT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 51

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 98