ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtcttcgtttgtattagggattttcctgattgatggctgatcttaccttgtgttcttgtctgatgatattctgttgttgtggtccgtag

Basic information

species	Zea mays
transcript	GRMZM2G072315_T03
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G072315_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g54890.2 (Oryza sativa), 5'ss of exon 2

CCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgt-gtcttcgtttgtattagggattttcctgattgatggctgatcttaccttgtgttcttgtctgatgatattctgttgttgt-ggtccgtag
|||||||||| |||||||| ||||| ||||| ||| ||||||||||||| |||||||||||||||| |||||||||| |||||||||| ||||| || |||||||| |  |||| ||||  |  |||||||  |   ||     | ||  | |         | |||| ||| | ||   ||| ||  |    ||||
CCAAGAGGGGAGAGGCGGCGCTGGCAAGGCTGAAGGCGTACGAGGGCGTGCCGCCGCCGTACGACAGGACCAAGCGCATGGTCATCCCCGACGCGCTCAAgtacgtcggattcgcttgttgtttggatttttttttgtg-----taattgtgcgcgagcgagtagtctaatggtgtttgtttggtgccgaattgtag

upper sequence: GRMZM2G072315_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g54860.1 (Oryza sativa), 5'ss of exon 2

CCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgt-gtcttcgtttgtattagggattttcctgattgatggctgatcttaccttgtgtt-----cttgtctgatgatattctgttgttgt-ggtccgtag
|||||||||| |||||||| ||||| ||||| ||| ||||||||| |||  ||||||||||||||| |||||||||| |||||||||| ||||| || |||||||| |  |||| ||||  |  |||| ||     ||  ||  |  | | |   ||          | |||| ||| | ||   ||| ||  |    ||||
CCAAGAGGGGAGAGGCGGCGCTGGCAAGGCTGAAGGCGTACGAGGTCGTGACGCCGCCGTACGACAGGACCAAGCGCATGGTCATCCCCGACGCGCTCAAgtacgtcggattcgcttgttgtttggatattttctttttgtgattattgtaattgtgcacgagcgattggtctaatggtgtttgtttggtgccgaattgtag

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|211068817|gb|FK951859.1|FK951859

EST:     CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAA                         GGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTC
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTC

EST: gi|89759041|gb|DY687990.1|DY687990

EST:     CCGCCGCCGTACGACAAGACCAAGCTCCTGGTCATCCCTGACGCTCTTAA                         AGTCCTGAGGCTGC
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGC

EST: gi|211077038|gb|FK951906.1|FK951906

EST:     CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAA                         GATCCTGAGGCTGCAACCTGGACACAAGTACT
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGCAACCTGGACACAAGTACT

EST: gi|14529422|gb|BI096555.1|BI096555

EST:     CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAA                         GGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTC
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTC

EST: gi|9566387|gb|BE475896.1|BE475896

EST:     CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAA                         GGGCCTGAGGCTGCAACCTGGACACAAGTAC
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGCAACCTGGACACAAGTAC

EST: gi|9731552|gb|BE510304.1|BE510304

EST:     CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAA                         GGTCCTGAGGCTGCAACCTGGACACAAGTACT
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGCAACCTGGACACAAGTACT

EST: gi|211518733|gb|FK951840.1|FK951840

EST:     CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAA                         GGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGC
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGC

EST: gi|211074298|gb|FK951895.1|FK951895

EST:     CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAA                         GGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTC
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTC

EST: gi|211071560|gb|FK951881.1|FK951881

EST:     CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAA                         GGTTCTGAGGCT
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCT

EST: gi|211071564|gb|FK951885.1|FK951885

EST:     CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAA                         GGTTCTGAGGCTGCAACC
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGCAACC

EST: gi|91048018|gb|EB158436.1|EB158436

EST:     CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAA                         GGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTC
genomic: CCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTC

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 2 RNA-Seq libraries.

Block sizes: 42 (upstream exon), 8 (downstream exon)
Score: 7

CCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTCATCCCTGACGCTCTTAAgtacgtgtct ... tggtccgtagGGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGGTGAGTGTTTCC