ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtatgtgtcactgttgtatataactcctttgttttttaataagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagaaaaaaataaaaaaaatgaggcatgcatagtaacttaccttaccgttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTATGTCAAGTGTAGTTAAGAATGTGAGTGGCATGAACTAGCTCTCTCCCTT

Basic information

species	Zea mays
transcript	GRMZM2G081682_T02
intron #	15
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G081682_T02 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 15

gtatgtgtcactgttgtatataactcctttgttttttaataagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagaaaaaaataaaaaaaatgaggcatg-catagtaacttaccttaccgttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTATGTCAAGTGTAGTTAAGAATGTGAGTGGCATGAACTAGCTCTCTCCCTT
                                            |||||  |  ||    || |     | |  ||||   ||||  ||  ||  | |  ||  | ||     |    | | | | ||  |  ||  |||   ||     ||||    ||||||||||||||||||| ||||||||| | ||||| ||| |||||||||||||||||||||||||||| ||||||||||||||| | || ||  |  | |  || | 
--------------------------------------------gtatgtgcgcatgcctttag-----ctcctgaaagtcacat-tatgcctgaaattcttgtttgatttcgatttgtgacatacataggatataacatttcaatg---cttatatatatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAATGTGAGTTGAATTAATAATATGTTGCCTTG

upper sequence: GRMZM2G081682_T02 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os07g47290.1 (Oryza sativa), 3'ss of exon 15

gtatgtgtcactgttgtatataactcctttgttttttaataagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagaaaaaaataaaaaaaatgaggcatg-catagtaacttaccttaccgttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTATGTCAAGTGTAGTTAAGAATGTGAGTGGCATGAACTAGCTCTCTCCCTT
                                            |||||  |  ||    || |     | |  ||||   ||||  ||  ||  | |  ||  | ||     |    | | | | ||  |  ||  |||   ||     ||||    ||||||||||||||||||| ||||||||| | ||||| ||| |||||||||||||||||||||||||||| |||||||||                             
--------------------------------------------gtatgtgcgcatgcctttag-----ctcctgaaagtcacat-tatgcctgaaattcttgtttgatttcgatttgtgacatacataggatataacatttcaatg---cttatatatatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAAT-----------------------------

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|5846747|gb|AI999830.1|AI999830

EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA

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), 49 (downstream exon)
Score: 339

CTGCCATCATGAATTGGAGACTGCACGGATTAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTATGTCAAGTGTAGTTAAGAATGTGAGTGGCATGAACTAGCTCTCTCCCTT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 289

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 231

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 406

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

aaaaaaataaaaaaaatgaggcatgcatagtaacttaccttaccgttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTATGTCAAGTGTAGTTAAGAATGTGAGTGGCATGAACTAGCTCTCTCCCTT