ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGCGCGGCGACGCTGGATTCACTTAGATCCAACAGGGTAATCGGCACGGGGCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAGgtttctttcaagctcctctgctcccttcaattccttcaaattcatgcggtcaagcctacgggaggttctgttgcccgtcccgtagctgcgcgttcctttt...

Basic information

species	Zea mays
transcript	GRMZM2G082181_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|76915407|gb|DV165971.1|DV165971

EST:     GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAG                         ATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT
genomic: GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAGgtttctttca ... atcattgcagATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT

EST: gi|22491186|gb|BU051109.1|BU051109

EST:     GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGCTCAG                         ATAATAGACTGGTGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGA
genomic: GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAGgtttctttca ... atcattgcagATAATAGACTGG-GCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGA

EST: gi|71770031|gb|DR967968.1|DR967968

EST:     GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAG                         ATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT
genomic: GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAGgtttctttca ... atcattgcagATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT

EST: gi|78089544|gb|DV517918.1|DV517918

EST:     CCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAG                         ATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT
genomic: CCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAGgtttctttca ... atcattgcagATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT

EST: gi|211504893|gb|FL311457.1|FL311457

EST:     GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAG                         ATAATAGACTGGGCGTGYGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT
genomic: GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAGgtttctttca ... atcattgcagATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT

EST: gi|87152306|gb|DY397095.1|DY397095

EST:     GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGCTCAG                         ATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT
genomic: GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAGgtttctttca ... atcattgcagATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT

EST: gi|19351393|gb|BM895925.1|BM895925

EST:     GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGGCGGCTCAG                         ATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT
genomic: GCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAGgtttctttca ... atcattgcagATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGAT

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), 45 (downstream exon)
Score: 69

CGCGCGGCGACGCTGGATTCACTTAGATCCAACAGGGTAATCGGCACGGGGCAGCCTCTCCACCCATTCCCGCAGCCGGTTGGGCGAGTCGTCGGTTCAGgtttctttca ... atcattgcagATAATAGACTGGGCGTGTGGATCCAAGAGGTTTGATCCCTTTAATTTGGATTGAAGTGCCAGCTTTCGGTCAGGAAGGTGATGCTGGATGATGCTGACGG

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 69

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 93

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 118

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