ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttttattcccataccgtggcacttttaccgtaagaatcttcgtttgccatggaggtcgattaatcagttacctctctcttgcaatgcag

Basic information

species	Zea mays
transcript	GRMZM2G124557_T02
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G124557_T02 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os08g40140.1 (Oryza sativa), 5'ss of exon 8

GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgc---tgcttttattccca-----taccgtggcacttt----taccgtaagaatcttcgtttgccatggaggtcgattaa--tcagttacctctctcttgcaatgcag
||||| || || || || ||||||||||||||||||||||| || |||||||| ||||| ||||||||| |||||||||    |  || ||  | ||     || | | ||  | |    ||  |   ||||         | || |      |      ||||||  | || | |||||| ||||
GACAAGGAAAATGGTGGAATTTCAGATAGACCAGATAATGCGGTAGATATCTACCACACATACTTTGGAGTTGCAGgtgtttatatttctaaccgcagttcttatcatagcgatatattatagtgcgtgaataaattgaaactatagtcccttagcggattcagttggcccttt-ttgcaa-gcag

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|211265935|gb|FL477027.1|FL477027

EST:     TAGGCCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG                         GGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG
genomic: TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG

EST: gi|71762606|gb|DR960543.1|DR960543

EST:     TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG                         GGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG
genomic: TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG

EST: gi|89250321|gb|DY622107.1|DY622107

EST:     TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG                         GGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG
genomic: TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG

EST: gi|88752275|gb|DY536416.1|DY536416

EST:     TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG                         GGCTTTCATTTATGGAGTACCCCGGGGGTGAAGCCTTTGGATCCTGCCTA
genomic: TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGG-TGAAGCCTTTGGATCCTGCCTA

EST: gi|74240224|gb|DT648138.1|DT648138

EST:     TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG                         GGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG
genomic: TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG

EST: gi|71767372|gb|DR965309.1|DR965309

EST:     TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG                         GGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG
genomic: TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG

EST: gi|78080906|gb|DV509318.1|DV509318

EST:     TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG                         GGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG
genomic: TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG

EST: gi|211265936|gb|FL477028.1|FL477028

EST:     TAGGCCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG                         GGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG
genomic: TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG

EST: gi|211265937|gb|FL477029.1|FL477029

EST:     ACTTTGGAATTGCAG                         GGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG
genomic: ACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG

EST: gi|71443998|gb|DR825048.1|DR825048

EST:     TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG                         GGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG
genomic: TAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATG

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), 49 (downstream exon)
Score: 202

GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAGgtgctgcttt ... tgcaatgcagGGCTTTCATTAATGGAGTACCCCGGGGTGAAGCCTTTGGATCCTGCCTATGCACTACCATTGCACGTTGTCAATCGGATTTTCTTGAAAAAATAGAACAT

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 145

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 170