ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGCGCTGGAGCTGCTGGGGCTGAGGGACAACGGCGCGGAGGACGCGTCGCCGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAGgtaaatcggaaactccctcacttattgcctctcgcctgcctgctcggattggcacccaccctgctctcttctgttccgttctgcctgtaaccaaccaacctctgtcttgttcttgctacgcgctgcag

Basic information

species	Zea mays
transcript	GRMZM2G319187_T01
intron #	2
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|148965681|gb|EE016536.2|EE016536

EST:     CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAG                         GAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA
genomic: CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAGgtaaatcgga ... cgcgctgcagGAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA

EST: gi|211335022|gb|FL082273.1|FL082273

EST:     CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAG                         GAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA
genomic: CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAGgtaaatcgga ... cgcgctgcagGAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA

EST: gi|148965682|gb|EE016537.2|EE016537

EST:     CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAG                         GAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA
genomic: CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAGgtaaatcgga ... cgcgctgcagGAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA

EST: gi|211335025|gb|FL082276.1|FL082276

EST:     CGCCGTCATCCTCCTCATC-T-T-CGTCGTCGTCCTCCCCTGACCATCAG                         GAGATCGACGTGARTCTCATCATCACTGACTACTGCWTGCCCGGCATGACA
genomic: CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAGgtaaatcgga ... cgcgctgcagGAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA

EST: gi|211335024|gb|FL082275.1|FL082275

EST:     CGCCGTCATCCTCCTCATC-T-T-CGTCGTCGTCCTCCCCTGACCATCAG                         GAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA
genomic: CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAGgtaaatcgga ... cgcgctgcagGAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA

EST: gi|149099490|gb|EE185528.2|EE185528

EST:     CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAG                         GAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA
genomic: CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAGgtaaatcgga ... cgcgctgcagGAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA

EST: gi|211335021|gb|FL082272.1|FL082272

EST:     CGCCGTCATCCTCCTCATC-T-T-CGTCGTCGTCCTCCCCTGACCATCAG                         GAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA
genomic: CGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAGgtaaatcgga ... cgcgctgcagGAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACA

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), 36 (downstream exon)
Score: 42

GGCGCTGGAGCTGCTGGGGCTGAGGGACAACGGCGCGGAGGACGCGTCGCCGCCGTCATCGTCCTCATCATCTTCGTCGTCGTCCTCCCCTGACCATCAGgtaaatcgga ... cgcgctgcagGAGATCGACGTGAGTCTCATCATCACTGACTACTGCATGCCCGGCATGACAGGATACGATCTGCTCAAGCGAGTGAAG

Block sizes: 44 (upstream exon), 48 (downstream exon)
Score: 27

Block sizes: 48 (upstream exon), 40 (downstream exon)
Score: 21

Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 37

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