ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACTGGGAGGTGATTTGACACCAGCAAAGGCGTTTACTTCTCTTTCATTATTTGCAGTCTTAAGGTTTCCACTTTTCATGCTCCCGAATCTGATAACTCAGgtatgtacgacactgtcttgttttccttttattaaagtatctataaagctacttggaaattacacagcatttccatttctatataaagtagcttcttatg...

Basic information

species	Zea mays
transcript	GRMZM2G084181_T01
intron #	15
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G084181_T01 (Zea mays), 5'ss of exon 15
lower sequence: LOC_Os04g52900.2 (Oryza sativa), 5'ss of exon 15

ACTGGGAGGTGATTTGACACCAGCAAAGGCGTTTACTTCTCTTTCATTATTTGCAGTCTTAAGGTTTCCACTTTTCATGCTCCCGAATCTGATAACTCAGgtatgtacgacactgtcttgttttccttttattaaagtatctataaagctacttggaaattacacagcatttccatttctatataaagtagcttcttatg-----
 ||||||||||| |||||||||||||||||||| || || |||||| | ||||| |||||||| ||||||||||| ||||| || ||||||||||||||||| || |  |  ||||     ||   | || ||||  |  | |      |   |  || |||   || || ||  |||||  |   |   | ||    ||     
GCTGGGAGGTGACTTGACACCAGCAAAGGCGTTCACATCACTTTCACTGTTTGCTGTCTTAAGATTTCCACTTTTTATGCTGCCAAATCTGATAACTCAGgtgtgcaaaaagctgta--aattatgtcttgttaagtttcccact---ttctgtacaagttaagaagtatatcattttctgaacttatatgtttggattgataat

upper sequence: GRMZM2G084181_T01 (Zea mays), 5'ss of exon 15
lower sequence: AT1G30420.1 (Arabidopsis thaliana), 5'ss of exon 15

ACTGGGAGGTGATTTGACACCAGCAAAGGCGTTTACTTCTCTTTCATTATTTGCAGTCTTAAGGTTTCCACTTTTCATGCTCCCGAATCTGATAACTCAGgtatgtacgacact-gtcttgttttccttt-tattaaagtatctataaagctacttggaaattacacagcattt----ccatttctatataaagtagcttcttatg
 || ||||| |||||||||||||||| ||| || || ||||||||  ||||||||||  |||| | ||| ||   || ||| || ||||| |||| ||||||   |   ||| |  ||   |||||  || ||||  |  ||  ||    | |       | |   || ||||      | | ||| |   |  |  || ||||  
GCTTGGAGGAGATTTGACACCAGCAAGGGCATTCACATCTCTTTCTCTATTTGCAGTTCTAAGATCTCCTCTCAGCACGCTACCAAATCTTATAAGTCAGgttattttaacaatcatccccttttcagttatatttgatcattcatgtgtcaatagattcactggtcatcattagttatcgtctctttgctatttctctacttag-

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|160481318|gb|EY254261.1|EY254261

EST:     TTTCCACTTTTCATGCTCCCGAATCTGATAACTCAG                         GTGGTTAATTGTAAGGTGTCATTGAAGCGTCTGGAAGATCTCCTGTTGGCT
genomic: TTTCCACTTTTCATGCTCCCGAATCTGATAACTCAGgtatgtacga ... aatttaacagGTGGTTAATTGTAAGGTGTCATTGAAGCGTCTGGAAGATCTCCTGTTGGCT

EST: gi|160481357|gb|EY254281.1|EY254281

EST:     TTGCAGTCTTAAGGTTTCCACTTTTCATGCTCCCGAATCTGATAACTCAG                         GTGGTTAATTGTAAGGTGTCATTGAAGCGTCTGGAAGATCTCCTGTTGGCT
genomic: TTGCAGTCTTAAGGTTTCCACTTTTCATGCTCCCGAATCTGATAACTCAGgtatgtacga ... aatttaacagGTGGTTAATTGTAAGGTGTCATTGAAGCGTCTGGAAGATCTCCTGTTGGCT

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), 48 (downstream exon)
Score: 226

ACTGGGAGGTGATTTGACACCAGCAAAGGCGTTTACTTCTCTTTCATTATTTGCAGTCTTAAGGTTTCCACTTTTCATGCTCCCGAATCTGATAACTCAGgtatgtacga ... aatttaacagGTGGTTAATTGTAAGGTGTCATTGAAGCGTCTGGAAGATCTCCTGTTGGCTGAAGAGAGATTACTTCTGCCAAATCCACCTATTGATCCTGATCTTCCAG

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 585

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 807