ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTCACACTGTCAGCCATACCCTTCGACATAATGCCAACTACCATAGAACAATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACGgtactggatcacatacaacggtataatttcacactgcatacaaccaactgctttctgatagctttttttatatcag

Basic information

species	Zea mays
transcript	GRMZM2G032944_T02
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|211229014|gb|FL455773.1|FL455773

EST:     ATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACG                         GTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT
genomic: ATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACGgtactggatc ... tttatatcagGTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT

EST: gi|24763644|gb|CA398816.1|CA398816

EST:     CTTCTTTTTAGGGATTACG                         GTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT
genomic: CTTCTTTTTAGGGATTACGgtactggatc ... tttatatcagGTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT

EST: gi|76914811|gb|DV165697.1|DV165697

EST:     ACCAGGCGGCCTTCTTCTTTTTAGGGATTACG                         GTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT
genomic: ACCAGGCGGCCTTCTTCTTTTTAGGGATTACGgtactggatc ... tttatatcagGTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT

EST: gi|149085004|gb|EE174514.2|EE174514

EST:     ATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACG                         GTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT
genomic: ATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACGgtactggatc ... tttatatcagGTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT

EST: gi|74246084|gb|DT653998.1|DT653998

EST:     ATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACG                         GTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT
genomic: ATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACGgtactggatc ... tttatatcagGTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT

EST: gi|78124011|gb|DV542395.1|DV542395

EST:     ATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACG                         GTCTTTATGACATGACAATGCTTCGGTTTTTACTTCATCAAAGAGTAGGGT
genomic: ATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACGgtactggatc ... tttatatcagGTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT

EST: gi|71759527|gb|DR957464.1|DR957464

EST:     ATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACG                         GTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT
genomic: ATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACGgtactggatc ... tttatatcagGTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGT

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: 45 (upstream exon), 48 (downstream exon)
Score: 20

TTCACACTGTCAGCCATACCCTTCGACATAATGCCAACTACCATAGAACAATGTGTTTCTGTTCTGAAACCAGGCGGCCTTCTTCTTTTTAGGGATTACGgtactggatc ... tttatatcagGTCTTTATGACATGACAATGCTTCGGTTTTTACCTCATCAAAGAGTAGGGTTTCGGGAATATATGCGATCAGATGGTACCTTTTCATACTTCTTCTCATT

Block sizes: 45 (upstream exon), 47 (downstream exon)
Score: 26

Block sizes: 45 (upstream exon), 44 (downstream exon)
Score: 16

Block sizes: 45 (upstream exon), 39 (downstream exon)
Score: 13

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