ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGAGGCGCTCCGCCGCTCCCTCGTCTTGTTCCGCGGCCAGCCCCTTGGCACCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgccactctattttatagctccctctactgaaaattaataattgttttgttgacagcagttgaaaattattttgatcccgagcttgtcattcggacgcttaaatatcttctggggtaaccggctgggcag

Basic information

species	Zea mays
transcript	GRMZM2G118737_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G118737_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g34560.2 (Oryza sativa), 5'ss of exon 1

GGAGGCGCTCCGCCGCTCCCTCGTCTTGTTCCGCGGCCAGCCCCTTGGCACCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgccactctattttatagctccctctactgaaaattaataattgttttgttgacagcagttgaaaattattttgatcccgagcttgtcattcggacgcttaaatatcttctggggtaaccggctgggcag
|||||||||||||||||| |||||||| ||||||||||||||||| |||||| | |||||| |||||||||| |||||||| ||||||||||||||||| || || |    || |        ||  |   | | ||   |    | |    |  |    |           || | |       |    | |   |     ||||   | |  ||   |                
GGAGGCGCTCCGCCGCTCGCTCGTCTTCTTCCGCGGCCAGCCCCTCGGCACCATCGCCGCCTTCGACCACGCCTCCGAGGAGGTCCTCAACTACGACCAGgttggtta--gctattcgcggcggcggcgctttcggattgtgcggattcagctcatctggaaaccgcatggcttgtctcatctggggagcttttgctt---tgctttgctttgctcgcag----------------

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|148971696|gb|EE022423.2|EE022423

EST:     CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTG
genomic: CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTG

EST: gi|50329588|gb|CO524714.1|CO524714

EST:     CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211128642|gb|FK982368.1|FK982368

EST:     GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|148955623|gb|EC901285.2|EC901285

EST:     CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211129561|gb|FK982374.1|FK982374

EST:     GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211127709|gb|FK982353.1|FK982353

EST:     GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211129557|gb|FK982370.1|FK982370

EST:     GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|60348011|gb|DN214984.1|DN214984

EST:     CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211128641|gb|FK982367.1|FK982367

EST:     GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211128634|gb|FK982360.1|FK982360

EST:     GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211023377|gb|FK982689.1|FK982689

EST:     CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|71449120|gb|DR830170.1|DR830170

EST:     CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211129559|gb|FK982372.1|FK982372

EST:     GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211128639|gb|FK982365.1|FK982365

EST:     GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211128631|gb|FK982357.1|FK982357

EST:     GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: GCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|149103240|gb|EE288612.2|EE288612

EST:     CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|149108702|gb|EE292918.2|EE292918

EST:     CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211023373|gb|FK982685.1|FK982685

EST:     CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: CCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

EST: gi|211128629|gb|FK982355.1|FK982355

EST:     ACGCGTCCGAGGAAGTCCTCAACTACGACCAA                         GTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC
genomic: ACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGC

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), 45 (downstream exon)
Score: 32

GGAGGCGCTCCGCCGCTCCCTCGTCTTGTTCCGCGGCCAGCCCCTTGGCACCGTTGCCGCCGTCGACCACGCGTCCGAGGAAGTCCTCAACTACGACCAAgtgggctgcc ... ggctgggcagGTGTTTGTGAGGGATTTCGTGCCGAGCGCGCTGGCGTTTCTGATGAATGGCGAGCCAGATATCGTCAAGAACTTCCTTCTGAAGACCCTGCTGCTGCAGG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 53

Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 45