ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CCTGATCCGTCGAATACTGCTTCTAAGTCACCTGCAATTGCTGCTCTGGCTGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAGgtatgtgctgatggaaatttttgcaaatagaaatataaaaattattgtagcttactttttctctgtaaaaaatcccgtgcaatgcaaattag

Basic information

species	Zea mays
transcript	GRMZM5G841727_T02
intron #	1
splice site	5'
intron type	U2

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|32841440|gb|CD981121.1|CD981121

EST:     TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAG                         GTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG
genomic: TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAGgtatgtgctg ... tgcaaattagGTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG

EST: gi|33094469|gb|CF054463.1|CF054463

EST:     TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAG                         GTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG
genomic: TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAGgtatgtgctg ... tgcaaattagGTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG

EST: gi|32841054|gb|CD980735.1|CD980735

EST:     TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAG                         GTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG
genomic: TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAGgtatgtgctg ... tgcaaattagGTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG

EST: gi|32840996|gb|CD980677.1|CD980677

EST:     TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAG                         GTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG
genomic: TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAGgtatgtgctg ... tgcaaattagGTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG

EST: gi|32841348|gb|CD981029.1|CD981029

EST:     TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAG                         GTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG
genomic: TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAGgtatgtgctg ... tgcaaattagGTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG

EST: gi|32840775|gb|CD980456.1|CD980456

EST:     TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAG                         GTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG
genomic: TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAGgtatgtgctg ... tgcaaattagGTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG

EST: gi|32841155|gb|CD980836.1|CD980836

EST:     TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAG                         GTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG
genomic: TGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAGgtatgtgctg ... tgcaaattagGTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTG

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: 145

CCTGATCCGTCGAATACTGCTTCTAAGTCACCTGCAATTGCTGCTCTGGCTGGTTCTTTGGATCACCCTTCTCAAACTCCTGCTCTAGAATTCATGAAAGgtatgtgctg ... tgcaaattagGTGGCTCCGAGTCAGAGAAGCCAAAACAGGAGGGAGATGGTAAAGAAGGTGTTGATACTGTGGCCACAAGAGTTGAATCTCTGACTATAAATGAAGATGT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 124

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 115

Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 59

Data associated with selected splice site

Sequence

Basic information

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

RNA-Seq data