ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTGGAAGATGTGTTCTTAAGATGGATCATCATTGTGTGTGGGTGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatactactatacctgatatatgctcctttttgagtaggaagatagattgacctttgggtttcaaagtttgtggttgatgcattaatgaggtgttt...

Basic information

species	Zea mays
transcript	GRMZM2G027307_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G027307_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g58960.1 (Oryza sativa), 5'ss of exon 3

GTGGAAGATGTGTTCTTAAGATGGATCATCATTGTGTGTGGGTGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatactactatacctgatatatgctcctttttgagta-ggaagatagattgacctttgggtttcaaagtttgtggttgatgcattaatgaggtgttt---
||||||||||||||||||||||||||||||||||||| ||||| |||||||||||||||||||| |||||||||||||||||||| |||||||||| ||| |||| ||  ||||||||         || ||   ||||  |||| | | || | ||||     |||    || |   ||| |   | ||||    
GTGGAAGATGTGTTCTTAAGATGGATCATCATTGTGTATGGGTTGTTAATTGTGTTGGGGCACTAAACTACAAATACTTTCTTCTCTTCCTGgtatgatattactgtaattgatatatttcttaggatgtgtttagaagggagataggctttggagttttgttattt----ttaacatattcacaggctgttattt

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|5895854|gb|AW037100.1|AW037100

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC

EST: gi|148930766|gb|EC873088.2|EC873088

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTC
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTC

EST: gi|26455295|gb|CA826878.1|CA826878

EST:     CTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC
genomic: CTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC

EST: gi|91874476|gb|EB404433.1|EB404433

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGGCTCAC
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC

EST: gi|148933153|gb|EC876792.2|EC876792

EST:     TGGTTTATTGTGTGGGGGCACTGAACTACAAATACTTTCTTCTGTTTCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGC
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGC

EST: gi|76016944|gb|DT944114.1|DT944114

EST:     TGGTTAATTGTGTTTGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGGT-ACACTCTCTTTATTGCCTCA
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTG-TCACACTCTCTTTATTGCCTCA

EST: gi|149072486|gb|EE160764.2|EE160764

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC

EST: gi|149004888|gb|EE039399.2|EE039399

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC

EST: gi|91875637|gb|EB405594.1|EB405594

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACNACTCTTGTCACACTCTCTTTATTGC
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGC

EST: gi|148956328|gb|EC902132.2|EC902132

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC

EST: gi|148966764|gb|EE017849.2|EE017849

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC

EST: gi|50326451|gb|CO521577.1|CO521577

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGANCA-CTCTTGTCACACTCTCTTTATTGCCTCA
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGA-CAACTCTTGTCACACTCTCTTTATTGCCTCA

EST: gi|21390493|gb|BQ528542.1|BQ528542

EST:     CTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC
genomic: CTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC

EST: gi|149110924|gb|EE294422.2|EE294422

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTTATGGC-TCA
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTT-ATTGCCTCA

EST: gi|89106688|gb|DY576905.1|DY576905

EST:     CTTTCTTCTGTTCCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC
genomic: CTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCAC

EST: gi|148932453|gb|EC876177.2|EC876177

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTTCTG                         TTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTT
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTT

EST: gi|101399438|gb|EB821591.1|EB821591

EST:     TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTG                         TTTTACACCTTC
genomic: TGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTC

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), 44 (downstream exon)
Score: 252

GTGGAAGATGTGTTCTTAAGATGGATCATCATTGTGTGTGGGTGGTTAATTGTGTTGGGGCACTGAACTACAAATACTTTCTTCTGTTCCTGgtataatact ... tgccatgcagTTTTACACCTTCCTCGAGACAACTCTTGTCACACTCTCTTTATTGCCTCACTTCATAGCCTTCTTCAGTGATATCGAGATCCCAGGAAGTCCTGCAGCAC

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

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 352