ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

...ttcttttccccaactcttcagggaaaagtccaatcttttgtgtcactttctatatgtacttcatatactgccatctgaaactttctttgttgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAGGCTCCAGCCTACGCTCAAAATTACCGTCAATTCCATCCATCTCCAGTCT

Basic information

species	Zea mays
transcript	GRMZM2G180720_T01
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G180720_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g08840.2 (Oryza sativa), 3'ss of exon 1

ttcttttccccaactcttcagggaaaagtccaatcttttgtgtcactttctatatgtacttcatatactgccatctgaaactttctttgttgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAGGCTCCAGCCTACGCTCAAAATTACCGTCAATTCCATCCATCTCCAGTCT---
             || ||  |    |  |   ||      ||   ||||  || |||     |  |  || ||| |  || ||| ||  ||||| ||||||||||||| ||||| | |||| |||||||||||| ||||  |||||| | ||| |||  ||||| || | || | | ||  || ||||  |||| |||||   
gaaaggaaatggcctgttttgtttta--tttgatgacagatgatgctttaaat-tgtttcctacctgttgtcatgtacaattttgttctttgatttgcagaagCCATGCTACCTGCTGTGAAGCTCTCTCCTGGCCCTGTGGCCTTCGCTGGCACCAATCTACGGTCCAGATCAGCTTCGGTTTCATCTGTCTCAAGTCTCAA

upper sequence: GRMZM2G180720_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g08840.1 (Oryza sativa), 3'ss of exon 1

-ttcttttccccaactcttcagggaaaagtccaatcttttgtgtcactttctatatgtacttcatatactgccatctgaaactttctttgttgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAGGCTCCAGCCTACGCTCAAAATTACCGTCAATTCCATCCATCTCCAGTCT
 ||             ||     |     |   ||      ||   ||||  || |||     |  |  || ||| |  || ||| ||  ||||| ||||||||||||| ||||| | |||| |||||||||||| ||||  |||||| | ||| |||  ||||| || | || | | ||  || ||||  |||| |||||
gttgaaaggaaatggcctgttttgttttatttgatgacagatgatgctttaaat-tgtttcctacctgttgtcatgtacaattttgttctttgatttgcagAAGCCATGCTACCTGCTGTGAAGCTCTCTCCTGGCCCTGTGGCCTTCGCTGGCACCAATCTACGGTCCAGATCAGCTTCGGTTTCATCTGTCTCAAGTCT

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|211337284|gb|FL086335.1|FL086335

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|32910888|gb|CF015700.1|CF015700

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|71764560|gb|DR962497.1|DR962497

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|14244707|gb|BG842645.2|BG842645

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|60355224|gb|DN222197.1|DN222197

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|211337287|gb|FL086338.1|FL086338

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|76923753|gb|DV169644.1|DV169644

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|211337285|gb|FL086336.1|FL086336

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|101390817|gb|EB817343.1|EB817343

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAA
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|37418356|gb|CF646846.1|CF646846

EST:     CTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCCGA-G                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCA
genomic: CTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGC-GAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCA

EST: gi|32863719|gb|CF003401.1|CF003401

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|32920066|gb|CF024878.1|CF024878

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|30031984|gb|CB833835.1|CB833835

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|71440960|gb|DR822010.1|DR822010

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|211459513|gb|FL086339.1|FL086339

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|60355230|gb|DN222203.1|DN222203

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|211337286|gb|FL086337.1|FL086337

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|32915160|gb|CF019972.1|CF019972

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

EST: gi|91868372|gb|EB400012.1|EB400012

EST:     TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAG                         AAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG
genomic: TCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAG

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: 48 (upstream exon), 49 (downstream exon)
Score: 268

TTGAGCCGGGCGGACGGATTGATCCCGGGACGAGGTGTCTCAGCTCTTGATCTTGATCCTGATCCTGGGAGGCGTTCCTGGTTTATTGGTGGGAGCGAAGgtgagatccg ... tgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAGGCTCCAGCCTACGCTCAAAATTACCGTCAATTCCATCCATCTCCAGTCT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 499

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 564

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 566

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ctttctatatgtacttcatatactgccatctgaaactttctttgttgatctgcagAAGCCATGATACCTTCCGTGAGGCTCTCTCCTGGTCCTGCAGCCTTCTCAGGCTCCAGCCTACGCTCAAAATTACCGTCAATTCCATCCATCTCCAGTCT