ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGATATCATATATGAATCTGTAGGTGGGGAAATGTTTGACTTGTGCTTGAATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttggcagcccttgagatccatgcttttagcttattatattgcaagtggcaacatctgagggtgattatgtaaaaccgtcacgtgctccaacatt...

Basic information

species	Zea mays
transcript	GRMZM2G147191_T02
intron #	14
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G147191_T02 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os09g28570.3 (Oryza sativa), 5'ss of exon 14

AGATATCATATATGAATCTGTAGGTGGGGAAATGTTTGACTTGTGCTTGAATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttggcagcccttgagatccatgcttttagcttattatat--tgcaagtggcaacatctgagggtgattatgtaaaaccg--tcacgtgctccaacatt
|||||||||||||||||| || |||||||||||||||||||| |||||||||||||||||||||||||| |  || |||||||||||||||||||||||||||   ||| ||||   ||| |  |||  |||||  |||| ||||  ||  | |      || |       | |  | |  |  |    |        | | ||
AGATATCATATATGAATCGGTTGGTGGGGAAATGTTTGACTTATGCTTGAATGCACTTGCAGTCCATGGACGCCTTATTGTAATTGGTATGATCTCCCAGgtatggttgacagc---tgaaactcat-tttttaatttatcatatgttgtgaatatgggaatttagtaaccactgcgcatgaatgaactatccaagtgagcttt

upper sequence: GRMZM2G147191_T02 (Zea mays), 5'ss of exon 14
lower sequence: AT1G49670.1 (Arabidopsis thaliana), 5'ss of exon 14

AGATATCATATATGAATCTGTAGGTGGGGAAATGTTTGACTTGTGCTTGAATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactt-tggcagcccttgagatccatgcttttagcttattatattgcaagtggcaacatctgagg--gtgatta---tgtaaaaccgtcacgtgctccaacatt---------
| ||||||| |||||||||||||||||  ||||||||||| ||||||||||||| ||||| ||  | || |  ||||| || ||||| |||||||| |||||  | | |   | | ||   |||  | |  |||   ||  || |||          || | |   |  ||  |||   | | |||| |  |   |    |    |         
AAATATCATCTATGAATCTGTAGGTGGTCAAATGTTTGACATGTGCTTGAATGCTCTTGCTGTTTACGGACGACTCATCGTGATTGGAATGATCTCTCAGgttccctatcatatcactctcgat--acgtcttttatttgataaattaagtccattcacctgttctgttgtatttagcttttgaaactgctagacgtctgattccttttttacag

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|76282583|gb|DV022151.1|DV022151

EST:     ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAG                         TATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG
genomic: ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG

EST: gi|211530862|gb|FL078323.1|FL078323

EST:     ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAG                         TATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG
genomic: ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG

EST: gi|76282582|gb|DV022150.1|DV022150

EST:     ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAG                         TATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG
genomic: ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG

EST: gi|211530863|gb|FL078324.1|FL078324

EST:     ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAG                         TATCAAGGAGAGGATGGCTGGAAG-CAAAGAACTACACTGGACTATGTGAG
genomic: ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG

EST: gi|58029381|gb|CX724808.1|CX724808

EST:     ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAG                         TATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG
genomic: ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG

EST: gi|67018859|gb|CO447608.1|CO447608

EST:     ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAG                         TATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG
genomic: ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG

EST: gi|13557631|gb|BG548987.1|BG548987

EST:     ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAG                         TATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG
genomic: ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG

EST: gi|166596288|gb|EG233785.1|EG233785

EST:     GGTATGATCTCCCAG                         TATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG
genomic: GGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG

EST: gi|60357940|gb|DN224913.1|DN224913

EST:     ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAG                         TATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG
genomic: ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG

EST: gi|16380053|gb|BI993288.1|BI993288

EST:     ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAG                         TATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG
genomic: ATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAG

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: 45 (upstream exon), 49 (downstream exon)
Score: 104

AGATATCATATATGAATCTGTAGGTGGGGAAATGTTTGACTTGTGCTTGAATGCACTTGCAGTCCATGGGCATCTCATTGTAATTGGTATGATCTCCCAGgtaactttgg ... ctattttcagTATCAAGGAGAGGATGGCTGGAAGCCAAAGAACTACACTGGACTATGTGAGAAGATTCTAGCTAAAAGTCAAACTGTG

Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 211

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 315