ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGAAAACCCTAACAATTCCAGCCCCTATATAACCACACCCACGCCGCCTCCGCCCGAACCCTAGAATCCACCCTGCCGCCTCACCGCCTCTCTCAATCTGgtatgtgccgtccgtcgcctcagtctcttcccgccgccgcttcggagactaacttctctccctttgttgttctctcttcgcag

Basic information

species	Zea mays
transcript	GRMZM2G032315_T01
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|211369671|gb|FK974181.1|FK974181

EST:     AACCCTAGAATCCACCCTGCCGCCTCACCGCCTCTCTCAATCTG                         ATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT
genomic: AACCCTAGAATCCACCCTGCCGCCTCACCGCCTCTCTCAATCTGgtatgtgccg ... ctcttcgcagATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT

EST: gi|84980713|gb|DW531062.1|DW531062

EST:     CGCCTCACCGCCTCTCTC--TCTG                         AGACCGCAGATCCGTTGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT
genomic: CGCCTCACCGCCTCTCTCAATCTGgtatgtgccg ... ctcttcgcagATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT

EST: gi|211232580|gb|FK974101.1|FK974101

EST:     TAGAATCCACCCTGCCGCCTCACCGCCTCTCTCAATCTG                         ATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT
genomic: TAGAATCCACCCTGCCGCCTCACCGCCTCTCTCAATCTGgtatgtgccg ... ctcttcgcagATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT

EST: gi|37394086|gb|CF634313.1|CF634313

EST:     CGCCTCTCTCACTCTG                         AGACCGCAGATCCGTTGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT
genomic: CGCCTCTCTCAATCTGgtatgtgccg ... ctcttcgcagATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT

EST: gi|211369677|gb|FK974187.1|FK974187

EST:     CTAGAATCCACCCTGCCGCCTCACCGCCTCTCTCAATCTG                         ATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT
genomic: CTAGAATCCACCCTGCCGCCTCACCGCCTCTCTCAATCTGgtatgtgccg ... ctcttcgcagATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT

EST: gi|211232579|gb|FK974100.1|FK974100

EST:     CCACCCTGCCGCCTCACCGCCTCTCTCACTCTG                         AGACCGCAGATCCGTTGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT
genomic: CCACCCTGCCGCCTCACCGCCTCTCTCAATCTGgtatgtgccg ... ctcttcgcagATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT

EST: gi|211369682|gb|FK974192.1|FK974192

EST:     TAGAAGCCACCCTGCCGCCTCACCGCCTCTCTCACTCTG                         AGACCGCAGATCCGTTGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT
genomic: TAGAATCCACCCTGCCGCCTCACCGCCTCTCTCAATCTGgtatgtgccg ... ctcttcgcagATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCT

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: 48 (upstream exon), 49 (downstream exon)
Score: 2135

CGAAAACCCTAACAATTCCAGCCCCTATATAACCACACCCACGCCGCCTCCGCCCGAACCCTAGAATCCACCCTGCCGCCTCACCGCCTCTCTCAATCTGgtatgtgccg ... ctcttcgcagATACCGCAGATCCGTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCTCCGGCGAGCTTGCCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGG

Block sizes: 40 (upstream exon), 49 (downstream exon)
Score: 2007

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 1625

Block sizes: 40 (upstream exon), 49 (downstream exon)
Score: 1102

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