ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGAAGCATTTCATTCACAACCACTTCACATTTCTGGTGAAGTATCACAAGGATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAGgtgtaatattgtagccttgtttctcaactcatagcactatgcttgccatcattttccatttatatgattgctataacaaaaaaaaaaccatatctgctggctgctgcag

Basic information

species	Zea mays
transcript	GRMZM2G409104_T01
intron #	5
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|78110631|gb|DV529039.1|DV529039

EST:     GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAG                         TATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA
genomic: GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAGgtgtaatatt ... gctgctgcagTATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA

EST: gi|148965278|gb|EE016081.2|EE016081

EST:     GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAG                         TATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA
genomic: GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAGgtgtaatatt ... gctgctgcagTATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA

EST: gi|149013945|gb|EE043446.2|EE043446

EST:     GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAG                         TATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA
genomic: GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAGgtgtaatatt ... gctgctgcagTATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA

EST: gi|149102922|gb|EE288273.2|EE288273

EST:     GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAG                         TATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCCTTA
genomic: GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAGgtgtaatatt ... gctgctgcagTATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCC-TTA

EST: gi|149096266|gb|EE181975.2|EE181975

EST:     GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAG                         TATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA
genomic: GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAGgtgtaatatt ... gctgctgcagTATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA

EST: gi|91871094|gb|EB401239.1|EB401239

EST:     GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAG                         TATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA
genomic: GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAGgtgtaatatt ... gctgctgcagTATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA

EST: gi|31353543|gb|CD437900.1|CD437900

EST:     GATGACACATGTTTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAG                         TATTAAGCATGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA
genomic: GATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAGgtgtaatatt ... gctgctgcagTATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAA

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: 36 (upstream exon), 48 (downstream exon)
Score: 120

AGAAGCATTTCATTCACAACCACTTCACATTTCTGGTGAAGTATCACAAGGATGACACAGGTCTTGCCAGGATTGTTGCCTTTGAGGTTAAACCATACAGgtgtaatatt ... gctgctgcagTATTAAGCACGAATTTGATGGCGACTGGAAGGGGAATGCTACACTCCTTAAAACCTGTGACCCACACTCAAGACGCCTTGTCGTAGACTCTGATTCACCT

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 144

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 244

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 178

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