ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGTGTGCATGTACCGCCGACCATTGCCCTTGCTACGAGAGGCCAGTTACAGAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaatacattccatttgactcatttgatggtttacagtgtttcctgaaaacttagtgacgtggaattctttttgtttcag

Basic information

species	Zea mays
transcript	GRMZM2G492252_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G492252_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os03g16570.2 (Oryza sativa), 5'ss of exon 5

CGTGTGCATGTACCGCCGACCATTGCCCTTGCTACGAGAGGCCAGTTACAGAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgcca----atacattccatttgactcatttgatggtttacagtgtttcctgaaaacttagtgacgtggaattctttttgttt-cag
|| |||||||| ||||||||||| || || || ||  ||||||  || ||||||||||| || ||||| || || |||||||| || || |||||||||||||   ||    || || |    || | |||| |  || ||   | |   ||||| || | |      || |      ||||| || |||
CGGGTGCATGTCCCGCCGACCATAGCTCTCGCCACACGAGGCCGTTTGCAGAGCCTTAGGCTCCAACTTGCGCTACTTGACCGCGAGTTCGATGATTTAGgtgatacactttattcacttaggttaattcatatactgcttcttact--ctcctgcaagcattacattgtagctgatgttttgcttgcag

upper sequence: GRMZM2G492252_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA11G14590.2 (Glycine max), 5'ss of exon 5

CGTGTGCATGTACCGCCGACCATTGCCCTTGCTACGAGAGGCCAGTTACAGAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaatacattccatttgactcatttgatggtt--tacagtgtttcctgaaaact--tagtgacgtggaattctttttgtttcag---
||| | ||  | ||  |  | |||||  |||| || |||||    || ||| | ||||||||||| || || |||||||||||||||||||||||  ||||| |   | |    |  ||||  || | ||||       || |     | || ||| |   ||  | | |  |   |||| | ||   |   
CGTCTTCACATGCCATCATCTATTGCGATTGCAACCAGAGGAAGATTGCAGGGACTTAGACTTCAGCTTGCACTTCTTGACCGTGAATTTGATGAGCTAGgtattgtattttgatatatttt-ctaagttgaaaacccctaaaacaggtgctaaaagcaaataaaggcttacatagctttattttgtggcag

upper sequence: GRMZM2G492252_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT3G55530.1 (Arabidopsis thaliana), 5'ss of exon 5

CGTGTGCATGTACCGCCGACCATTGCCCTTGCTACGAGAGGCCAGTTACAGAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgt--gtgcca---atacattccatttgactcatttgatggtttacagt--gtttcctgaaaacttagt--gacgtggaattctttttgtttcag---
 |  ||||||| || ||  ||||||| |||||||||||||| |   | ||| | ||||| || || |||||||||||||| || ||||||||||| ||||||  ||  ||        |||| ||| | |  | |   | ||   |||  | || ||        |||  ||     || |  || || | ||    
AGGTTGCATGTGCCTCCTTCCATTGCTCTTGCTACGAGAGGGCGTCTTCAGGGACTTAGGCTCCAGCTGGCTCTTCTTGATCGGGAATTTGATGACTTAGgtcagtatcatccgcttgttcctttttattagtctatagtttagtagtttgctttctatggttgaagtctgagacaaaagttgttctgctgcaacag

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|78074674|gb|DV503108.1|DV503108

EST:     CCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: CCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|60359234|gb|DN226207.1|DN226207

EST:     GACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|78123225|gb|DV541609.1|DV541609

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|149105940|gb|EE291566.2|EE291566

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|88758241|gb|DY542382.1|DY542382

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|71424496|gb|DR806334.1|DR806334

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|110517661|gb|EE022248.1|EE022248

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|88758240|gb|DY542381.1|DY542381

EST:     AGACTTCAACTGGCTCTTTTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCGGACAATAGCCTGCATGTTCCTT
genomic: AGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|50324565|gb|CO519691.1|CO519691

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGAC
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGAC

EST: gi|71774882|gb|DR972760.1|DR972760

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|91868647|gb|EB400100.1|EB400100

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|71426202|gb|DR807252.1|DR807252

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|71774881|gb|DR972759.1|DR972759

EST:     AGCCTTAGACTTCAACT-GCTTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: AGCCTTAGACTTCAACTGGC-TCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|60352872|gb|DN219845.1|DN219845

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|86467860|gb|DY234230.1|DY234230

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

EST: gi|148971543|gb|EE022249.2|EE022249

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGANCA-TAGCCTGCATGTTCCT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGA-CAATAGCCTGCATGTTCCT

EST: gi|76936255|gb|DV174660.1|DV174660

EST:     GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAG                         ATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT
genomic: GAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTT

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), 48 (downstream exon)
Score: 96

CGTGTGCATGTACCGCCGACCATTGCCCTTGCTACGAGAGGCCAGTTACAGAGCCTTAGACTTCAACTGGCTCTTCTTGACCGTGAATTTGATGATTTAGgtgtgccaat ... tttgtttcagATTATGACACTCTGAGAGCACTGGATGCTGACAATAGCCTGCATGTTCCTTCTATGAGTGAAGAAGAAATAAATTCTCTTCCTGTCTTCAAATATAAAGT

Block sizes: 49 (upstream exon), 33 (downstream exon)
Score: 11

Block sizes: 44 (upstream exon), 47 (downstream exon)
Score: 24