ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GAATGGTTTTGATGGTACAGATACACATTACTTTCACAGTGGTCCACGTGGCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaacaaaaatgctctatctccattaattttattctcctatttttctgcctgtatcgttccaacaattttatccgtatgcag

Basic information

species	Zea mays
transcript	GRMZM2G032628_T01
intron #	12
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G032628_T01 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os02g32660.1 (Oryza sativa), 5'ss of exon 12

GAATGGTTTTGATGGTACAGATACACATTACTTTCACAGTGGTCCACGTGGCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaacaaaa-atgctctatctccatt-----aattttatt-ctcctatttttctgcctgtatcg----ttccaacaattttatccgtatgcag
||| |||||||||||||||||||| ||||||||||| |||||| |||| |||||||| |||||||||||||||||||| || ||||||||||| ||||||||| ||||||    |  | |||  ||| ||     | | | |||  || |||   |    || ||| |    | |||||| |||||||| ||| |||
GAACGGTTTTGATGGTACAGATACGCATTACTTTCATAGTGGTTCACGCGGCCATCATTGGATGTGGGATTCTCGCCTTTTCAACTATGGGAATTGGGAAgtaaggaacacgttaatcgctacttccctttacaaagtatcattattcatatgcattaatctctattgtgtttgccaacatttttatccttatacag

upper sequence: GRMZM2G032628_T01 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA19G37750.2 (Glycine max), 5'ss of exon 12

GAATGGTTTTGATGGTACAGATACACATTACTTTCACAGTGGTCCACGTGGCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaacaa----aaatgctctatctccattaatttt-------attctcctatttttctgcctgtatcgttccaacaatttta--tccgtatgcag
|||    |||||||| || |||   |||||||| ||   |||  |||| ||  |||| |||||||||||||||||||| ||||||||||| | |||||||||| |          |||   |  ||   |||    | |       |||    ||  ||     |   |       |   | ||||  ||   ||  ||
GAACATGTTTGATGGAACTGATGGTCATTACTTCCATCCTGGGTCACGAGGTTATCATTGGATGTGGGATTCTCGCCTTTTTAACTATGGAAGCTGGGAAgtaagtgctggctccaaagaattcattggcatagtatctgaaaaaaatttctataccttctgttcaacagtaaatgacttactttaattcttaatttag

upper sequence: GRMZM2G032628_T01 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA03G35020.1 (Glycine max), 5'ss of exon 12

GAATGGTTTTGATGGTACAGATACACATTACTTTCACAGTGGTCCACGTGGCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaacaa----aaatgctctatctccattaatttt------attctcctatttttctgcctg-tatcgttccaacaatttta--tccgtatgcag
|||    |||||||| || |||   |||||||| ||   |||  |||| ||  |||| |||||||||||||||||||| |||||||| || | |||||||||| |          |||   |  ||   |||   || |      ||| |||     |||||      |       |   | ||||  ||   ||  ||
GAACATGTTTGATGGAACTGATGGTCATTACTTCCATCCTGGGTCACGAGGTTATCATTGGATGTGGGATTCTCGCCTTTTTAACTACGGAAGCTGGGAAgtaagtgctggctccaaagaattcattggcatagtttctgacaaaattttccgtaccttctgttcaacagtaagtgacttactttaattcttaatttag

upper sequence: GRMZM2G032628_T01 (Zea mays), 5'ss of exon 12
lower sequence: Vv08s0007g03750.t01 (Vitis vinifera), 5'ss of exon 12

GAATGGTTTTGATGGTACAGATACACATTACTTTCACAGTGGTCCACGTGGCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaacaaaaatgctctatctccattaattttattctcctatttttctgcctgta-----tcgttccaacaatt--ttatccgtatgcag---
 ||  | |||||||| || ||||  || || || ||   |||  || | ||  | ||||||||||||||||||||||| ||||| || || | |||||||||| |   |    ||||   |  || |  |||  | || | |  ||| |   | | |      | |||  |   |||  || ||  | ||      
AAACAGGTTTGATGGAACTGATAGTCACTATTTCCATTCTGGATCAAGGGGTTACCACTGGATGTGGGATTCTCGCCTTTTTAATTACGGAAGCTGGGAAgtatgtg-ctttgatgccaaagttcaagaaatagtgttttgccctttatgctcttattgttttttgttgtagggattaattgtctctttgttttag

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|211070434|gb|FL128675.1|FL128675

EST:     GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAA                         GTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTTGAGGAATATAAG
genomic: GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaaca ... ccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG

EST: gi|6578060|gb|AW244197.1|AW244197

EST:     CGCCTATTTAACTATGGGAACTGGGAA                         GTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG
genomic: CGCCTATTTAACTATGGGAACTGGGAAgtacggaaca ... ccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG

EST: gi|31360518|gb|CD444875.1|CD444875

EST:     GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAA                         GTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG
genomic: GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaaca ... ccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG

EST: gi|67032923|gb|CO461672.1|CO461672

EST:     GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAA                         GTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG
genomic: GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaaca ... ccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG

EST: gi|67034885|gb|CO463418.1|CO463418

EST:     GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAA                         GTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG
genomic: GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaaca ... ccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG

EST: gi|91873181|gb|EB403138.1|EB403138

EST:     GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAA                         GTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG
genomic: GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaaca ... ccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG

EST: gi|31360077|gb|CD444434.1|CD444434

EST:     GTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAA                         GTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG
genomic: GTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaaca ... ccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG

EST: gi|67018905|gb|CO447654.1|CO447654

EST:     GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAA                         GTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG
genomic: GCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaaca ... ccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG

EST: gi|108953879|gb|EC364910.1|EC364910

EST:     GGGATTCTCGCCTATTTAACTATGGGAACTGGGAA                         GTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG
genomic: GGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaaca ... ccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAG

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), 37 (downstream exon)
Score: 90

GAATGGTTTTGATGGTACAGATACACATTACTTTCACAGTGGTCCACGTGGCCATCACTGGATGTGGGATTCTCGCCTATTTAACTATGGGAACTGGGAAgtacggaaca ... ccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAGTTTGATGGTTTCCGTTTTGATGGTGTGACCTCCATGATGTACACTCATC

Block sizes: 29 (upstream exon), 21 (downstream exon)
Score: 5

Block sizes: 43 (upstream exon), 46 (downstream exon)
Score: 7