ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGCTCAACTTCGCCATGGTCGACGACGGCATATTCCGCTCCGGCTTCCCGGAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtctctttcgctctcccacgccgcgccgtctctcccttgaatcaccgcgaaagttgtcgcgtgctcgtgaggcgctctgaaacgttctggcgcaccag

Basic information

species	Zea mays
transcript	GRMZM2G134389_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G134389_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os06g10650.1 (Oryza sativa), 5'ss of exon 1

CGCTCAACTTCGCCATGGTCGACGACGGCATATTCCGCTCCGGCTTCCCGGAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcg-------tctctttcgctctcccac--gccgcgccgtctctccctt----gaatcaccgcgaa---agttgtcgcgtgctcgtgaggcgc---tctgaaacgttctggcgcaccag----------
||||||||||||| ||||||||||||||||| ||||||||||||||||| | | ||||||| ||||||||||||||||| |||||||||||||||||||||| ||         ||||| || |||||   |  ||  |  ||||| |  | |    |  |      |      ||||   || |   ||| |||||   |  |    |||||| ||     |          
CGCTCAACTTCGCGATGGTCGACGACGGCATCTTCCGCTCCGGCTTCCCCGCGGCCGCCAACTTCCGGTTCCTCAAGTCGCTCAACCTCCGCTCCATCGTgtgaggaatttttctctctctctctctctagctagctacctcgtctgttgcatctaggggttgggttgggttgggttgcttcgcgggtgtgtggcgcgtgttcgtgtggttctgacgagggtgacgtcatcag

upper sequence: GRMZM2G134389_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA02G43550.1 (Glycine max), 5'ss of exon 1

CGCTCAACTTCGCCATGGTCGACGACGGCATATTCCGCTCCGGCTTCCCGGAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaag-cgtctc-tttcgctctcccacgccgcgccgtct-ctcccttgaatcaccgcga--aagttgtcgcgtgctcg--tgaggcgctctga--aacgttctggcgcaccag----------------------------------------------------
| ||||||||||||||||| ||  | ||||| ||||||||||||||||| ||  ||||||| |||   |||||| |  |||||  |||||| |||||| |||  | | || | | ||  || |||    |    | ||| || | ||   | | |  ||  | | | | | || | |   ||| |   | |||  || ||                                                                 
CCCTCAACTTCGCCATGGTTGATAATGGCATTTTCCGCTCCGGCTTCCCCGAACCCGCCAACTTCTCCTTCCTCCAAACCCTCGGCCTCCGTTCCATCATgtctgtcctcacatctcaatcacccttttcttatcttcttcttcgttttgttaacttgatgatgcttttgagtacccaattgatgaattgtgagtaaagtctcaatcttttccttgttgcacgctgttgctgattgtttttttgtttgattgggtgtttttatag

upper sequence: GRMZM2G134389_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA07G39440.1 (Glycine max), 5'ss of exon 1

CGCTCAACTTCGCCATGGTCGACGACGGCATATTCCGCTCCGGCTTCCCGGAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtc-tctttcgctctcccacgccgcgccgtctctcccttgaatcaccgcgaaagttgtcgcgt--gctcgtgaggcgctctgaaacgttctggcgcaccag
||||||||||||||||||||||| ||||||| ||  |  | ||||| || ||  ||||||| ||| | ||||| || || |||   ||||| ||| |  ||| ||| || | || || ||   ||   |     | || |   |  |    |||   | ||  | |  |    |  || |  |                        
CGCTCAACTTCGCCATGGTCGACAACGGCATTTTTAGGGCTGGCTTTCCCGATTCCGCCAACTTCGGATTCCTGAAATCACTCCGTCTCCGTTCCGTAATgtgagcttcattttccgttccttcatttc----tgactattgttgaaggatccgtatatgtaatagtatttatttttgtgcag------------------------

upper sequence: GRMZM2G134389_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv12s0059g01400.t01 (Vitis vinifera), 5'ss of exon 1

CGCTCAACTTCGCCATGGTCGACGACGGCATATTCCGCTCCGGCTTCCCGGAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtctctttcgctctcccacgccgcgccgtctctcccttgaatcaccgcgaaagttgtcgcgtgctcgtgaggcgctctgaaacgttctggcgcaccag-----------
| ||||||||||||||||||||  ||||||| |||||||| || || || || || ||||| |||   ||| |  |  ||||    ||||| || ||| ||| ||  |   |||    |      ||  ||   |     |      | | |    || |  |    |     |  ||   |||    | || |   |    |            
CTCTCAACTTCGCCATGGTCGATAACGGCATCTTCCGCTCAGGTTTTCCCGACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctgaatttgagccctttttgcttcgttttaggctctgatcttgaactgagaaatgttaatttagggttttggttttctttttcttttttttggttgaattttcatttag

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|211385283|gb|FL301230.1|FL301230

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211387917|gb|FL301248.1|FL301248

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|5555286|gb|AI881237.1|AI881237

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|5555280|gb|AI881231.1|AI881231

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211385286|gb|FL301233.1|FL301233

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGC-GTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211387909|gb|FL301240.1|FL301240

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|5555378|gb|AI881329.1|AI881329

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|4966628|gb|AI691484.1|AI691484

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGA

EST: gi|211385281|gb|FL301228.1|FL301228

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|93281321|gb|EB673585.1|EB673585

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211387907|gb|FL301238.1|FL301238

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGATCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|50339825|gb|CO534951.1|CO534951

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211385282|gb|FL301229.1|FL301229

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211385287|gb|FL301234.1|FL301234

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211387916|gb|FL301247.1|FL301247

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211387914|gb|FL301245.1|FL301245

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|78087468|gb|DV515861.1|DV515861

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211387906|gb|FL301237.1|FL301237

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211387912|gb|FL301243.1|FL301243

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|211385288|gb|FL301235.1|FL301235

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

EST: gi|76294316|gb|DV033884.1|DV033884

EST:     GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA
genomic: GAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAA

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: 46 (upstream exon), 47 (downstream exon)
Score: 40

CGCTCAACTTCGCCATGGTCGACGACGGCATATTCCGCTCCGGCTTCCCGGAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... ggcgcaccagGTACCTGTGCCCGGAGCCGTACCCAGAGACGAACACGGAGTTCCTCGAGAAGAACGGGATCAGGCTCCACCAGTTCGGAATCGAGGGGCGAAAG

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 117

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 140