ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtaactgttctattattcccaccactgccatttgcgtaacccgtatgtcccttgacttataacaagtactggttccaactcttctcattcatgttgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG

Basic information

species	Zea mays
transcript	GRMZM2G124557_T02
intron #	8
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G124557_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os08g40140.2 (Oryza sativa), 3'ss of exon 7

gtaactgttctattattcccaccactgccatttgcgtaacccgtatgtcccttgacttataacaagta-------ctggttccaactcttctcattca---------------------tgttgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG------------------------
|||| || |  |  | ||   |  |||   |||| ||||||  | ||||| || |   |  | || ||       |  ||||| | ||||  |||| |                     |||| || || ||||||| || || || || ||||||||||||||||||||||| || |||||||| ||||| ||||||||| ||||||                        
gtaaatgcttga--aatcttgcatctgatttttgtgtaacc-atgtgtccattaatcaaataaaaatatctgtctcctgttcccagtctttccatttacattttttaaatatataatcttgttcattggtagGACAAGGAAAATGGTGGAATTTCAGATAGACCAGATAATGCGGTAGATATCTACCACACATACTTTGGAGTTGCAGGTGTTTATATTTCTAACCGCAGTT

upper sequence: GRMZM2G124557_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os08g40140.1 (Oryza sativa), 3'ss of exon 7

gtaactgttctattattcccaccactgccatttgcgtaacccgtatgtcccttgacttataacaagta-------ctggttccaactcttctcattca---------------------tgttgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG
|||| || |  |  | ||   |  |||   |||| ||||||  | ||||| || |   |  | || ||       |  ||||| | ||||  |||| |                     |||| || || ||||||| || || || || ||||||||||||||||||||||| || |||||||| ||||| ||||||||| ||||||
gtaaatgcttga--aatcttgcatctgatttttgtgtaacc-atgtgtccattaatcaaataaaaatatctgtctcctgttcccagtctttccatttacattttttaaatatataatcttgttcattggtagGACAAGGAAAATGGTGGAATTTCAGATAGACCAGATAATGCGGTAGATATCTACCACACATACTTTGGAGTTGCAG

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:     CAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGGCCAGATAATGCAGTCGATATC
genomic: CAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC

EST: gi|166429214|gb|EG289960.1|EG289960

EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACC

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

EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC

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

EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC

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

EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GGACAA-GAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATAT
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagG-ACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATAT

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

EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGCCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC

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

EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC

EST: gi|166573818|gb|EG319919.1|EG319919

EST:     GCATTGGATTGACAAGGAAAAGCTAACGAAATTACATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAA
genomic: GCATTGGATTGACAAGGAAAAGCTAACGAAATT-CATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAA

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

EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC

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

EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGGCCAGATAATGCAGTCGATATC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC

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

EST:     TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG                         GACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC
genomic: TGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATC

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: 182

GTTTGCTACTCGTGGTGGGTGCTATCGAGCCTAGTCATGATTGACAGAGTGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAGgtaactgttc ... tgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG

Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 141

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 187

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 140

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ccttgacttataacaagtactggttccaactcttctcattcatgttgatcggcagGACAAAGAGAACGGCGGCATTTCAGATAGACCAGATAATGCAGTCGATATCTATCACACGTACTTTGGAATTGCAG