ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtatggtctctcccaatttaagcttcagttgttttgcaacttgggtatcttgttaaacaacaactttctggtatggtctctcccaattcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCTGATTACAACAAAATAAGCATGTCTTACGAAACTCAAAGTGTTGCCGAGG

Basic information

species	Zea mays
transcript	GRMZM2G125556_T03
intron #	7
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G125556_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g40890.2 (Oryza sativa), 3'ss of exon 6

gtatggtctctcccaattt-aagcttcagttgttttgcaacttgggtatcttgttaaacaacaactttctggtatggtctctcccaattcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGC--TGATTACA-ACAAAATAAGCATGTCTTACGAAACTCA-AAGTGTTGCCGAGG
|||||| ||||| || ||| |||  | |||  ||| |     |   | |||  ||  |     |  |  |         ||   | |||||||||||| || || || |||||||||||||||||||| || ||  ||  | ||||    |||||  ||| ||||| | ||||||||    || |  |   ||   |   
gtatggcctctcacattttgaaggcttagtcctttagtc-tgtaattgtctgattctaatgtgatgtcttc------catcatactattcttgcagGCCAGTGTTGGACTTGATGATCTGAAGGCTTCTTA-ATGCATTCCTATGCAACAATTACCCACAGAATAAACCTGTCTTACCTGTCTAATGAAATTTAGTG---

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|76285485|gb|DV025053.1|DV025053

EST:     AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT

EST: gi|93282355|gb|EB674619.1|EB674619

EST:     AATTTTGCACGACCTTTTTTCCTTTCCTCAAAGAAAACCACAACTTTTTG                         GCGAGCGTCGGTCTTGATGATTTGAAGGCTTCATAGATCAATCTCCATGCT
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT

EST: gi|211377924|gb|FL095474.1|FL095474

EST:     AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT

EST: gi|211041270|gb|FL124817.1|FL124817

EST:     AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAA-CCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATC
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATC

EST: gi|71771167|gb|DR969104.1|DR969104

EST:     AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT

EST: gi|211249240|gb|FL481701.1|FL481701

EST:     AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT

EST: gi|60400894|gb|DN233701.1|DN233701

EST:     AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT

EST: gi|211484414|gb|FL480094.1|FL480094

EST:     AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT

EST: gi|211475757|gb|FL124814.1|FL124814

EST:     AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATCT
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCT

EST: gi|93282356|gb|EB674620.1|EB674620

EST:     AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATCTG
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCTG

EST: gi|161592264|gb|EY962319.1|EY962319

EST:     ATTTTGCACGACCTTCTCTCCTTTCCTCAAAAGAAAACCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATC
genomic: ATTTTGCACGACCTTCTCTCCTTTCCTCAAA-GAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATC

EST: gi|211466760|gb|FL298405.1|FL298405

EST:     AATTTTGCACGACCTTCTCTCCTTTCCTCNNNNNNNNCCACAACTTTCTG                         GCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT
genomic: AATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCT

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: 91

ATTTATGGAGGTCATTAGTGGAACCGGTGACATCAATGCAGATATTGAGAAATTTTGCACGACCTTCTCTCCTTTCCTCAAAGAAAACCACAACTTTCTGgtatggtctc ... attcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCTGATTACAACAAAATAAGCATGTCTTACGAAACTCAAAGTGTTGCCGAGG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 199

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 404

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 109

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ttgggtatcttgttaaacaacaactttctggtatggtctctcccaattcttgcagGCGAGCGTCGGTCTTGATGATCTGAAGGCTTCATAGATCAATCTCCATGCTGATTACAACAAAATAAGCATGTCTTACGAAACTCAAAGTGTTGCCGAGG